BLASTX 2.2.25 [Feb-01-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= Ephedra26_contig00008726
         (3202 letters)

Database: ./nr 
           37,332,560 sequences; 13,225,080,153 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|AAS55439.1| RNA polymerase I largest subunit [Ephedra viridis]     902   0.0  
ref|XP_002981487.1| hypothetical protein SELMODRAFT_233747 [Sela...   902   0.0  
ref|XP_006850181.1| hypothetical protein AMTR_s00022p00245030 [A...   771   0.0  
gb|AAS55438.1| RNA polymerase I largest subunit [Welwitschia mir...   732   0.0  
gb|AAS55436.1| RNA polymerase I largest subunit [Podocarpus macr...   706   0.0  
gb|AAS55443.1| RNA polymerase I largest subunit [Cycas revoluta]      706   0.0  
gb|AAS55442.1| RNA polymerase I largest subunit [Pinus nigra]         704   0.0  
emb|CBI29879.3| unnamed protein product [Vitis vinifera]              699   0.0  
ref|XP_002277555.1| PREDICTED: DNA-directed RNA polymerase I sub...   699   0.0  
gb|ACJ63314.1| RNA polymerase I large subunit [Illicium parviflo...   692   0.0  
gb|AAS55444.1| RNA polymerase I largest subunit [Zamia muricata]      690   0.0  
gb|AAS55445.1| RNA polymerase I largest subunit [Ginkgo biloba]       689   0.0  
ref|XP_004967186.1| PREDICTED: DNA-directed RNA polymerase I sub...   672   0.0  
gb|AAS55437.1| RNA polymerase I largest subunit [Taxus canadensis]    672   0.0  
ref|XP_002526734.1| DNA-directed RNA polymerase I largest subuni...   657   0.0  
ref|XP_003559192.1| PREDICTED: DNA-directed RNA polymerase I sub...   651   0.0  
gb|EOY09357.1| Nuclear RNA polymerase A1 isoform 3 [Theobroma ca...   640   0.0  
gb|EOY09355.1| Nuclear RNA polymerase A1, putative isoform 1 [Th...   640   0.0  
gb|EOY09358.1| Nuclear RNA polymerase A1 isoform 4 [Theobroma ca...   640   e-180
gb|EOY09356.1| Nuclear RNA polymerase A1, putative isoform 2 [Th...   640   e-180

>gb|AAS55439.1| RNA polymerase I largest subunit [Ephedra viridis]
          Length = 534

 Score =  902 bits (2332), Expect = 0.0
 Identities = 460/525 (87%), Positives = 462/525 (88%)
 Frame = +1

Query: 1    TVPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKV 180
            TVPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACI            Q KV
Sbjct: 26   TVPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACISSFSGTSHGCNSQSKV 85

Query: 181  AICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRES 360
            AICKED LFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRES
Sbjct: 86   AICKEDSLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRES 145

Query: 361  WELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFTCFMQMHGF 540
            WELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFTCFMQ    
Sbjct: 146  WELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFTCFMQAE-- 203

Query: 541  TCGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFLGKDAXXXXXXXXXXXXXXXLRSKG 720
                                       GDKAHAQFLGKDA               LRSKG
Sbjct: 204  --------------IERREKLAKAKEEGDKAHAQFLGKDAKEIDLGKIEEEIEKILRSKG 249

Query: 721  ESSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGMVNFTQISS 900
            ESSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGMVNFTQISS
Sbjct: 250  ESSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGMVNFTQISS 309

Query: 901  LLGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFISDRFLTGLRPQEYYFHCMAGRDG 1080
            LLGQQELEGKRVPRMISGKTLPCFSPWD QPRAGGFISDRFLTGLRPQEYYFHCMAGRDG
Sbjct: 310  LLGQQELEGKRVPRMISGKTLPCFSPWDIQPRAGGFISDRFLTGLRPQEYYFHCMAGRDG 369

Query: 1081 LVDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDVTKSSCLTG 1260
            LVDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDVTKSSCLTG
Sbjct: 370  LVDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDVTKSSCLTG 429

Query: 1261 FEILAANQKLLSQKLCKEQFNDFTDRKLARKKSSAAVCDTTDIPEKLKEKAHKYIYKLSE 1440
            FEILAANQKLLSQKLCKE+FNDFTDRKLARK SSA+VCD TDIPEKLKEKAHKYIYKLSE
Sbjct: 430  FEILAANQKLLSQKLCKEKFNDFTDRKLARKSSSASVCDATDIPEKLKEKAHKYIYKLSE 489

Query: 1441 KEKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVGEPS 1575
            KEKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVGEPS
Sbjct: 490  KEKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVGEPS 534


>ref|XP_002981487.1| hypothetical protein SELMODRAFT_233747 [Selaginella moellendorffii]
            gi|300150653|gb|EFJ17302.1| hypothetical protein
            SELMODRAFT_233747 [Selaginella moellendorffii]
          Length = 1578

 Score =  902 bits (2332), Expect = 0.0
 Identities = 505/1022 (49%), Positives = 648/1022 (63%), Gaps = 10/1022 (0%)
 Frame = +1

Query: 4    VPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVA 183
            VPTSG+PIRGLIQDHI+SATLLTK+DTFL+KEEY  LVYSAC+               V 
Sbjct: 602  VPTSGEPIRGLIQDHIISATLLTKKDTFLTKEEYHQLVYSACVPMPTLESATFSKGRNVK 661

Query: 184  ICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRESW 363
                     ++PPA+WKP  LW+GKQV+TTIL+Y+TRG  PFSM++  RV   Y G+ S 
Sbjct: 662  TLDNHPAIETVPPAIWKPRCLWSGKQVLTTILNYVTRGRPPFSMERGIRVSGDYIGKTSE 721

Query: 364  ELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFTCFMQMHGFT 543
            EL+V+++ N+ +CG+IDKAQFGK+GLVH V ELYGAD AG LLSVFSRLFT ++ MHGFT
Sbjct: 722  ELKVLVRGNDFLCGIIDKAQFGKFGLVHTVQELYGADDAGHLLSVFSRLFTSYLFMHGFT 781

Query: 544  CGAVDLLLFPHXXXXXXXXXXXXXXX-GDKAHAQFLG---KDAXXXXXXXXXXXXXXXLR 711
            CG  D+LL P                 GD  H +F+G   K                 L+
Sbjct: 782  CGIADMLLLPGAEEERAAKLEPAENELGDIVHGRFVGVEDKQLSSVGIEAIKDMTGRILQ 841

Query: 712  SKGESSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGMVNFTQ 891
             + ++  ARLD LMS A+NK+TSEVN ++FP GL KPF +NCLSLMT+TGAKGGMVNFTQ
Sbjct: 842  LRADAGRARLDMLMSSAMNKVTSEVNNALFPKGLVKPFPENCLSLMTVTGAKGGMVNFTQ 901

Query: 892  ISSLLGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFISDRFLTGLRPQEYYFHCMAG 1071
            ISS+LGQQELEGKRVPRM+SGKTLPCF P++   R+GGFI DRFLTGLRPQEYY+HCMAG
Sbjct: 902  ISSMLGQQELEGKRVPRMVSGKTLPCFQPYEPVARSGGFIKDRFLTGLRPQEYYYHCMAG 961

Query: 1072 RDGLVDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDVTKSSC 1251
            RDGLVDTAVKT++SGYLQRC+IKNLECL + YD TVRD+DGSVIQF YGED VDVTKSSC
Sbjct: 962  RDGLVDTAVKTAKSGYLQRCIIKNLECLKINYDFTVRDADGSVIQFFYGEDAVDVTKSSC 1021

Query: 1252 LTGFEILAANQKLLSQKL-CKEQFNDFTDRKLARKKSSAAVCDTTDIPEKLKEKAHKYIY 1428
            LT F+++A N+ L++QKL   E   D  + K    K +      TDIPE +++K  K++ 
Sbjct: 1022 LTNFDLMATNRDLITQKLGLGEHAKDVKNMKAIVSKDAY----ITDIPEAMEQKFEKFMG 1077

Query: 1429 KLSEKEKHLWKL---RKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVGEPSTQMTLNTF 1599
             LSE++K  +KL   R  K+   ++  KY +SLA PGE VGV+AGQS+GEPSTQMTLNTF
Sbjct: 1078 GLSEEKKKAYKLYRRRHIKELRSVMTHKYFASLAAPGEPVGVLAGQSIGEPSTQMTLNTF 1137

Query: 1600 HFAGRGEMNVTLGIPRLREILMAASKNILTPVMTCRVKDGKTREDAERLAGKFRRIRFAD 1779
            HFAGRGEMNVTLGIPRL EIL  ASK I TP+MTC +K GKTR++ ++LAG   ++   D
Sbjct: 1138 HFAGRGEMNVTLGIPRLHEILTVASKAIKTPIMTCPLKPGKTRDEGQKLAGVMTKVMLPD 1197

Query: 1780 LIETMDVGVVPFAVKAGVMQNTYKLKIKLYSPENYPSHSGISLEKCKSIFEEVFSKEMXX 1959
            ++ET++V  VPF V  GV    YK+++++Y  E    H  I     KS+F +   KE+  
Sbjct: 1198 ILETVEVSAVPFYVHHGVPSRLYKVRLRVYPEE----HMAI-----KSVFAKGVRKEIER 1248

Query: 1960 XXXXXXXXXXXXXEGAVQVFSESQPIDELGMSSDDEVQANSGQKKPDNGTXXXXXXXXXX 2139
                              + S    I  LG+S D+   A  G+ +               
Sbjct: 1249 EIK--------------ALTSAKDSIQILGISEDEPSPAGEGEIEGGKKKVVEAGEVAEE 1294

Query: 2140 XXXXXXXXXXXYKRKVQGTXXXXXXXXXXXXXKSMAEYFSTEANTXXXXXXXXXXXMQNT 2319
                          K +G                  +  + E ++            +N 
Sbjct: 1295 DDDDDDQEEGADAEKRKG---------------RTTDEAAYETDSEQEDEQEMDLDAEND 1339

Query: 2320 LAEEDSLVDEMSSRSMVTDLGXXXXXXXXXXNDSTVSVTSGRTLTWEYSVMENSHILLAP 2499
            +A+ D+  DE     +V D              S+V    GR+   ++   +NS  L  P
Sbjct: 1340 IADGDN--DEEKGGEVVDDEEEGHGKEKEGKKSSSVR-ARGRSYEMKFQANQNSPQLFLP 1396

Query: 2500 -IAEKVANKVYVQSVTNIDKCAVIEITEKKDNPPIPALQTNGINFEAFWKL-DNELDINR 2673
             I EKV   V V+ + NI+KC  IE+  K +N   PALQT+G+NF   W L D+ LD+N+
Sbjct: 1397 NIVEKVLKTVTVRRMKNIEKCNTIELNGKPEN---PALQTDGVNFWELWSLPDDVLDLNK 1453

Query: 2674 LMTNDINKVLEVYGVEAACATIVLEVQNVFDSYGITVDRRHLSLIADFMTFNGGYRPLNR 2853
            L +NDI  +L  YGVEAA ATIV EVQ VF SYGI+V+ RHLSLIADFMTF GGYRPLNR
Sbjct: 1454 LTSNDIAAMLNTYGVEAARATIVREVQGVFGSYGISVNARHLSLIADFMTFQGGYRPLNR 1513

Query: 2854 IGIDSSTSPFLKISFETATKFLVDSCLQGETDYLASPSARIVLGQVAKMGTGCFDILQNL 3033
            +GI S+ SPFLK+SFETA++FL+D+ L+ + D L +PS+RI++G+   +GTGCFD+LQ  
Sbjct: 1514 VGIVSNPSPFLKMSFETASQFLIDASLRRQVDELDTPSSRIIVGRTVGLGTGCFDLLQKT 1573

Query: 3034 EV 3039
            ++
Sbjct: 1574 DM 1575


>ref|XP_006850181.1| hypothetical protein AMTR_s00022p00245030 [Amborella trichopoda]
            gi|548853779|gb|ERN11762.1| hypothetical protein
            AMTR_s00022p00245030 [Amborella trichopoda]
          Length = 1600

 Score =  771 bits (1991), Expect = 0.0
 Identities = 396/646 (61%), Positives = 479/646 (74%)
 Frame = +1

Query: 4    VPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVA 183
            VPTSG+PIRGLIQDHIVSA LLTK+DTFL++EEY +L+YSAC+              K++
Sbjct: 567  VPTSGEPIRGLIQDHIVSAVLLTKKDTFLTQEEYHHLLYSACVSTVAPDFKHGNLSKKIS 626

Query: 184  ICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRESW 363
            + K D     L PA+WKP PLWTGKQVI+TILD++TRG  PF++K+ GR+PA Y+G+++ 
Sbjct: 627  LVKSDEEIRPLLPAIWKPKPLWTGKQVISTILDHVTRGQPPFTVKRAGRIPAGYFGKKNG 686

Query: 364  ELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFTCFMQMHGFT 543
            E +V++  NELV GVIDKAQFGK+GLVH VHELYGA AAGRL SVF+RLFT ++QMHGFT
Sbjct: 687  EYKVLVHKNELVHGVIDKAQFGKFGLVHAVHELYGASAAGRLFSVFTRLFTAYLQMHGFT 746

Query: 544  CGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFLGKDAXXXXXXXXXXXXXXXLRSKGE 723
            CG  DLL+                  GD  H+ F+G                  +R KGE
Sbjct: 747  CGVDDLLVRQCAEMDRRRKLDESETIGDHVHSWFIGAKDAEMDPIRMQAAIEKLVRGKGE 806

Query: 724  SSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGMVNFTQISSL 903
            S+ ARLDR+MS ALN++TSEVN S+FP+GL K F  NCLSLMT +GAKGG+VNFTQISSL
Sbjct: 807  SAIARLDRMMSSALNRLTSEVNNSLFPEGLSKSFPSNCLSLMTSSGAKGGLVNFTQISSL 866

Query: 904  LGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFISDRFLTGLRPQEYYFHCMAGRDGL 1083
            LGQQELEGKRVPRM+SGKTLPCF PWD+  RAGGFISDRFL GLRPQEYYFHCMAGR+GL
Sbjct: 867  LGQQELEGKRVPRMVSGKTLPCFLPWDSAARAGGFISDRFLNGLRPQEYYFHCMAGREGL 926

Query: 1084 VDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDVTKSSCLTGF 1263
            VDTA+KT+RSGYLQR L+KNLECL V YDHTVRDSDGS+I+F YGEDGVDV K+S LT F
Sbjct: 927  VDTAIKTARSGYLQRRLMKNLECLRVNYDHTVRDSDGSIIEFIYGEDGVDVVKTSWLTEF 986

Query: 1264 EILAANQKLLSQKLCKEQFNDFTDRKLARKKSSAAVCDTTDIPEKLKEKAHKYIYKLSEK 1443
            + LAAN+K LS +L   Q  D     L  +  S       D+P+ L+EK +K+I KLS+K
Sbjct: 987  KFLAANKKTLSARLGVHQLED----ALPSEYDSY----IKDLPDALEEKMNKFIEKLSKK 1038

Query: 1444 EKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVGEPSTQMTLNTFHFAGRGEM 1623
            ++    LRK K F +LL++KY SSLA+PGEAVGV+A QS+GEPSTQMTLNTFHFAG+GEM
Sbjct: 1039 KRDSLHLRKLKHFRNLLKLKYFSSLAQPGEAVGVIAAQSIGEPSTQMTLNTFHFAGQGEM 1098

Query: 1624 NVTLGIPRLREILMAASKNILTPVMTCRVKDGKTREDAERLAGKFRRIRFADLIETMDVG 1803
            NVTLGIPRL+EIL  A+K+I TPVMTC +   +TR+DAERLA K  RI+FAD+IE+M V 
Sbjct: 1099 NVTLGIPRLQEIL-GAAKDIRTPVMTCPLLKQRTRDDAERLAAKLSRIKFADVIESMQVH 1157

Query: 1804 VVPFAVKAGVMQNTYKLKIKLYSPENYPSHSGISLEKCKSIFEEVF 1941
            VVPF+VK G     YKL++ LY PE +P HS I+   C   F   F
Sbjct: 1158 VVPFSVKNGEACTVYKLRVSLYPPELFPEHSDITRADCVKAFRSQF 1203



 Score =  200 bits (509), Expect = 3e-48
 Identities = 109/208 (52%), Positives = 143/208 (68%), Gaps = 4/208 (1%)
 Frame = +1

Query: 2428 SVTSGRTLTWEYSVMENSHILLAPIAEKVANKVYVQSVTNIDKCAVIE---ITEKKDNPP 2598
            ++ +G  L   +   +    LL+  AEKVAN  YV+SV  ID+C+V++   + + K  PP
Sbjct: 1394 TLDTGEDLEAPFIFPKGCPYLLSQAAEKVANDTYVRSVLGIDQCSVVDYQPVEDYKGEPP 1453

Query: 2599 IP-ALQTNGINFEAFWKLDNELDINRLMTNDINKVLEVYGVEAACATIVLEVQNVFDSYG 2775
               A+QT G NF   W  + ++DI  L++NDI+ +L+ YGVEAA ATI  E+++VF SYG
Sbjct: 1454 SSVAIQTAGTNFLLMWTRE-DVDIKHLVSNDIHAMLKTYGVEAARATIKREIRSVFGSYG 1512

Query: 2776 ITVDRRHLSLIADFMTFNGGYRPLNRIGIDSSTSPFLKISFETATKFLVDSCLQGETDYL 2955
            I V+ RHL LI+DFMT  GG RP  R GID +TSPFLKI++ETAT+F+VDS + G  D L
Sbjct: 1513 IAVNSRHLDLISDFMTAGGGLRPFTRKGIDYNTSPFLKITYETATRFVVDSAIHGLEDAL 1572

Query: 2956 ASPSARIVLGQVAKMGTGCFDILQNLEV 3039
             SPSARIVLGQV KMGTGC  +LQNL V
Sbjct: 1573 ESPSARIVLGQVPKMGTGCISVLQNLVV 1600


>gb|AAS55438.1| RNA polymerase I largest subunit [Welwitschia mirabilis]
          Length = 543

 Score =  732 bits (1890), Expect = 0.0
 Identities = 368/522 (70%), Positives = 418/522 (80%)
 Frame = +1

Query: 1    TVPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKV 180
            TVPTSGDPIRGLIQDHIVSATLLTK+DTFL++EEYQNLVY+AC+             PKV
Sbjct: 26   TVPTSGDPIRGLIQDHIVSATLLTKKDTFLTREEYQNLVYTACVSSSSPFYRYAKDCPKV 85

Query: 181  AICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRES 360
             I K++  FV LPPA+WKP PLWTGKQVITTILD+IT+G+LPFS KK GRVP  YWGR+S
Sbjct: 86   TIEKDESSFVPLPPAIWKPNPLWTGKQVITTILDHITKGTLPFSSKKAGRVPPDYWGRDS 145

Query: 361  WELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFTCFMQMHGF 540
             E+EV+I++NEL+CGVIDKAQFGKYGLVH+VHELYGADAAGRLLSVFSRLFT F+QMHGF
Sbjct: 146  GEIEVLIRDNELICGVIDKAQFGKYGLVHIVHELYGADAAGRLLSVFSRLFTAFLQMHGF 205

Query: 541  TCGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFLGKDAXXXXXXXXXXXXXXXLRSKG 720
            TCGAVDLLL P                GDK H QFLG                  LRSKG
Sbjct: 206  TCGAVDLLLVPKAENERRKKLEKAKKLGDKVHLQFLGLSGQELGEGQMEEEIEKILRSKG 265

Query: 721  ESSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGMVNFTQISS 900
            E++SARLDRLMS ALN +TS+VN S+FP GL  PF KNCLSLMT TGAKGGMVNFTQISS
Sbjct: 266  ETASARLDRLMSSALNGVTSDVNNSLFPKGLLVPFPKNCLSLMTTTGAKGGMVNFTQISS 325

Query: 901  LLGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFISDRFLTGLRPQEYYFHCMAGRDG 1080
            LLGQQELEGKRVPRM+SGKTLPCFSPWD+ PRAGGFISDRFLTGLR QEYYFHCMAGRDG
Sbjct: 326  LLGQQELEGKRVPRMVSGKTLPCFSPWDSSPRAGGFISDRFLTGLRLQEYYFHCMAGRDG 385

Query: 1081 LVDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDVTKSSCLTG 1260
            LVDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSV+QF YGEDGVDVTK+SCLT 
Sbjct: 386  LVDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVVQFIYGEDGVDVTKTSCLTA 445

Query: 1261 FEILAANQKLLSQKLCKEQFNDFTDRKLARKKSSAAVCDTTDIPEKLKEKAHKYIYKLSE 1440
            FEILAANQKLLS +L K++F +F   K + + S         +P+ L+ +A  +   L++
Sbjct: 446  FEILAANQKLLSHRLHKDKFINFLGGKSSNESSVV-------LPKALQSEARAFFENLTK 498

Query: 1441 KEKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVG 1566
            K+K   KL K K+F+DLL+++YISSLA+PGEAVGV+AGQS+G
Sbjct: 499  KQKLSMKLTKAKEFMDLLQLRYISSLAQPGEAVGVIAGQSIG 540


>gb|AAS55436.1| RNA polymerase I largest subunit [Podocarpus macrophyllus]
          Length = 550

 Score =  706 bits (1823), Expect = 0.0
 Identities = 346/524 (66%), Positives = 414/524 (79%)
 Frame = +1

Query: 4    VPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVA 183
            VPTSGDPIRGLIQDHIVSA LLTKRDTFL+KEEYQ+LVY+AC+             PK+ 
Sbjct: 27   VPTSGDPIRGLIQDHIVSAALLTKRDTFLTKEEYQHLVYNACVSSSAPVYQRGMSSPKIG 86

Query: 184  ICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRESW 363
            I ++D +F+SLPP +W+P PLWTGKQVITT+L++IT+G   F+M K G+VP  YWGR S 
Sbjct: 87   IVEDDLVFLSLPPTIWRPKPLWTGKQVITTVLNHITKGRPRFTMNKSGKVPGDYWGRNSG 146

Query: 364  ELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFTCFMQMHGFT 543
            EL+V+IQNNELVCGV+DKAQFGKYGLVHVV EL+GA+ AG LLS+FSRLFT ++QMHGFT
Sbjct: 147  ELDVLIQNNELVCGVVDKAQFGKYGLVHVVQELFGANVAGHLLSIFSRLFTGYLQMHGFT 206

Query: 544  CGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFLGKDAXXXXXXXXXXXXXXXLRSKGE 723
            CG  DLLL P                GDK H QFLG D                LR+KG+
Sbjct: 207  CGIADLLLIPQAEDGREKILEKSEKLGDKVHLQFLGGDQDRTDLLNLGEDIEKVLRNKGD 266

Query: 724  SSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGMVNFTQISSL 903
            ++SARLDRLMS ALN+ITS+VN S+FP GL K F  NCLSLMT +GAKGG+VNFTQISSL
Sbjct: 267  AASARLDRLMSSALNRITSDVNNSIFPKGLLKSFPSNCLSLMTTSGAKGGLVNFTQISSL 326

Query: 904  LGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFISDRFLTGLRPQEYYFHCMAGRDGL 1083
            LGQQELEGKRVPRMISGKTLPCF PWDT+ RAGGFISDRFLTGLRPQEYYFHCMAGRDGL
Sbjct: 327  LGQQELEGKRVPRMISGKTLPCFPPWDTRARAGGFISDRFLTGLRPQEYYFHCMAGRDGL 386

Query: 1084 VDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDVTKSSCLTGF 1263
            VDTAVKTSRSGYLQRCLIKNLECL V+YD+TVRDSDGS+IQF YGEDGVDV K+SCLT F
Sbjct: 387  VDTAVKTSRSGYLQRCLIKNLECLKVYYDYTVRDSDGSIIQFHYGEDGVDVMKTSCLTQF 446

Query: 1264 EILAANQKLLSQKLCKEQFNDFTDRKLARKKSSAAVCDTTDIPEKLKEKAHKYIYKLSEK 1443
            +ILA NQKL+ Q+L K QF++   +  ++++SS +   T+D+PE L+ KA  +I  LS++
Sbjct: 447  DILATNQKLVIQRLGKHQFDELNCKSSSKERSSISENYTSDLPEALRFKAQDFINNLSKQ 506

Query: 1444 EKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVGEPS 1575
            ++ + +L  P  FL+L+R+KY++SLA+PGE VGV+AGQS+GEPS
Sbjct: 507  KRQILELEDPSNFLNLMRLKYVTSLAQPGEPVGVIAGQSIGEPS 550


>gb|AAS55443.1| RNA polymerase I largest subunit [Cycas revoluta]
          Length = 547

 Score =  706 bits (1821), Expect = 0.0
 Identities = 349/524 (66%), Positives = 407/524 (77%)
 Frame = +1

Query: 4    VPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVA 183
            VPTSGDPIRGLIQDH+ SATLLTKRDTFL+K++YQ+LVYSAC+             PK+ 
Sbjct: 27   VPTSGDPIRGLIQDHVASATLLTKRDTFLTKDDYQHLVYSACVSTTAPVFQRGKSCPKIG 86

Query: 184  ICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRESW 363
            I K+D  F+SLPPA+WKP PLWTGKQVIT +L+Y+TRGS PF+MKK GRVP  YWG+ S 
Sbjct: 87   IVKDDHTFLSLPPAIWKPQPLWTGKQVITALLNYVTRGSPPFTMKKAGRVPGDYWGKSSG 146

Query: 364  ELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFTCFMQMHGFT 543
            EL+V+IQNNEL+CGV+DKAQFGKYGLVH+V ELYGADAAG LLSVFSRLFT ++QMHGFT
Sbjct: 147  ELKVIIQNNELICGVLDKAQFGKYGLVHIVQELYGADAAGHLLSVFSRLFTGYLQMHGFT 206

Query: 544  CGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFLGKDAXXXXXXXXXXXXXXXLRSKGE 723
            CG  DLLL P                GD  H+QF+G D                LR KGE
Sbjct: 207  CGVADLLLVPQAEDYREKKLGKAEMLGDTVHSQFIGVDGDCIDLEQMEGDIEKHLRGKGE 266

Query: 724  SSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGMVNFTQISSL 903
             +S RLDRLMS ALN++TSEVN  +FP GL KPF  NCLSLMT+TGAKGG+VNFTQISSL
Sbjct: 267  VASNRLDRLMSSALNRVTSEVNNVLFPKGLLKPFPSNCLSLMTVTGAKGGLVNFTQISSL 326

Query: 904  LGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFISDRFLTGLRPQEYYFHCMAGRDGL 1083
            LGQQELEGKRVPRM+SGKTLPCF PWD++ RAGGFISDRFLTGLRPQEYYFHCMAGRDGL
Sbjct: 327  LGQQELEGKRVPRMVSGKTLPCFPPWDSRARAGGFISDRFLTGLRPQEYYFHCMAGRDGL 386

Query: 1084 VDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDVTKSSCLTGF 1263
            VDTA+KTSRSGYLQRCLIKNLECL V YD+TVRDSDGSVIQF YGEDG+DV K+SCLT F
Sbjct: 387  VDTAIKTSRSGYLQRCLIKNLECLKVHYDYTVRDSDGSVIQFTYGEDGLDVMKTSCLTEF 446

Query: 1264 EILAANQKLLSQKLCKEQFNDFTDRKLARKKSSAAVCDTTDIPEKLKEKAHKYIYKLSEK 1443
            ++LAANQKL+S++L    F +   +   +K S + +     +PE  + K   +I  LS+K
Sbjct: 447  KVLAANQKLVSRRLGGGNFTELNCQYSDKKSSDSYI---KSLPEAFENKLQTFINGLSKK 503

Query: 1444 EKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVGEPS 1575
            +K   KLRK  KFL+L+R+KYISSLA+PGE VGV+AGQS+GEPS
Sbjct: 504  KKRSLKLRKQNKFLNLMRLKYISSLAQPGEPVGVIAGQSIGEPS 547


>gb|AAS55442.1| RNA polymerase I largest subunit [Pinus nigra]
          Length = 547

 Score =  704 bits (1816), Expect = 0.0
 Identities = 351/528 (66%), Positives = 413/528 (78%), Gaps = 4/528 (0%)
 Frame = +1

Query: 4    VPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVA 183
            VPTSGDPIRGLIQDHIVSA LLTKRDTFL+KEEYQNLVY+AC+             PKV 
Sbjct: 20   VPTSGDPIRGLIQDHIVSAALLTKRDTFLTKEEYQNLVYTACVSNAAPIFQRGKSCPKVG 79

Query: 184  ICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRESW 363
            + K++  F+SLPP + KP PLWTGKQVITT+L YIT+G  PF++KK GRVP  YWG+ S 
Sbjct: 80   VVKDEHAFLSLPPTILKPEPLWTGKQVITTVLHYITKGRPPFTVKKSGRVPGDYWGKSSG 139

Query: 364  ELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFTCFMQMHGFT 543
            ELEV+IQNNEL+CGVIDKAQFGKYG+VH+V ELYGADAAG LLSVFSRLFT ++QMHGFT
Sbjct: 140  ELEVLIQNNELICGVIDKAQFGKYGMVHIVQELYGADAAGHLLSVFSRLFTGYLQMHGFT 199

Query: 544  CGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFLGKDAXXXXXXXXXXXXXXXLRSKGE 723
            CG VDLLL P                GDK H QFLG D                LR+KGE
Sbjct: 200  CGVVDLLLVPQAEDDRKKKLEKSEKLGDKIHLQFLGGDRADIDVMCIEEEIEKVLRTKGE 259

Query: 724  SSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGMVNFTQISSL 903
             +S+RLDRLMS ALN+ITSEVN S+FP GL KPF  NCLSLMT+TGAKGG+VNFTQISSL
Sbjct: 260  VASSRLDRLMSSALNRITSEVNNSLFPKGLLKPFPGNCLSLMTMTGAKGGLVNFTQISSL 319

Query: 904  LGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFISDRFLTGLRPQEYYFHCMAGRDGL 1083
            LGQQELEGKRVPRM+SGKTLPCF PWD++ RAGGFISDRFLTGLRPQEYYFHCMAGRDGL
Sbjct: 320  LGQQELEGKRVPRMVSGKTLPCFPPWDSRSRAGGFISDRFLTGLRPQEYYFHCMAGRDGL 379

Query: 1084 VDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDVTKSSCLTGF 1263
            VDTA+KTSRSGYLQRCLIKNLECL V+YD+TVRDSDGSVIQF YGEDG+DV K SCLT F
Sbjct: 380  VDTAIKTSRSGYLQRCLIKNLECLKVYYDYTVRDSDGSVIQFNYGEDGLDVMKISCLTEF 439

Query: 1264 EILAANQKLLSQKLCKEQFNDF----TDRKLARKKSSAAVCDTTDIPEKLKEKAHKYIYK 1431
            E+LA NQKL+ Q+L   + ++     + ++  ++KSS A     D+PE L++K  ++I  
Sbjct: 440  EVLATNQKLVRQRLGTNKLDELGSQHSKKEKFKEKSSVAGSYAKDLPEALEKKVQEFIGG 499

Query: 1432 LSEKEKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVGEPS 1575
            LS++++   KL+   KFL+++ +KY+SSLA+PGEAVGV+AGQS+GEPS
Sbjct: 500  LSKEKRQSLKLKNQNKFLNMMGLKYVSSLAQPGEAVGVIAGQSIGEPS 547


>emb|CBI29879.3| unnamed protein product [Vitis vinifera]
          Length = 1669

 Score =  699 bits (1805), Expect = 0.0
 Identities = 361/676 (53%), Positives = 466/676 (68%), Gaps = 26/676 (3%)
 Frame = +1

Query: 4    VPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVA 183
            VP+ GDPIRGLIQDHIVSA LLTK+DTFL++E+Y  L+YS+ +            + KV+
Sbjct: 630  VPSRGDPIRGLIQDHIVSAVLLTKKDTFLTREQYNQLLYSSGLSSGSGSFIGKPGK-KVS 688

Query: 184  ICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRE-- 357
            +   +     L PA+WKP PLW+GKQVIT +L++ITRG  PF+ +K G++P  Y+G E  
Sbjct: 689  VLDSEDEMQPLLPAIWKPEPLWSGKQVITAVLNHITRGRKPFTTEKDGKIPREYFGSEID 748

Query: 358  -----------------------SWELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYG 468
                                     E +++I  NELV GVIDKAQF KYGLVH+V ELYG
Sbjct: 749  EKKSGKGKDPGSDRRKEKRIEKKHGEYKLLIHKNELVRGVIDKAQFDKYGLVHMVQELYG 808

Query: 469  ADAAGRLLSVFSRLFTCFMQMHGFTCGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFL 648
            ++ AG LLSV SRLFT F+QMHGFTCG  DLL+ P+               G+  H +F+
Sbjct: 809  SNTAGILLSVLSRLFTVFLQMHGFTCGVDDLLISPNYDIARKIELDKSENIGELVHCKFI 868

Query: 649  GKDAXXXXXXXXXXXXXXXLRSKGESSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFL 828
            G +                + S GE++  RLDR+M   LN++TS+VN  +   GL KPF 
Sbjct: 869  GSNHGKIDPVKLQVEVEKIILSNGEAAITRLDRMMKNELNELTSKVNKDLLLKGLVKPFP 928

Query: 829  KNCLSLMTLTGAKGGMVNFTQISSLLGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGF 1008
            KNCLSLMT TGAKG  VNF+QISS LGQQ+LEGKRVPRM+SGKTLPCF PWD   RAGGF
Sbjct: 929  KNCLSLMTTTGAKGSTVNFSQISSFLGQQDLEGKRVPRMVSGKTLPCFPPWDCAARAGGF 988

Query: 1009 ISDRFLTGLRPQEYYFHCMAGRDGLVDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDS 1188
            ISDRFLTGL PQEYYFHCMAGR+GLVDTAVKTSRSGYLQRCLIKNLECL V YD+TVRDS
Sbjct: 989  ISDRFLTGLHPQEYYFHCMAGREGLVDTAVKTSRSGYLQRCLIKNLECLKVCYDYTVRDS 1048

Query: 1189 DGSVIQFCYGEDGVDVTKSSCLTGFEILAANQKLLSQKLCKE-QFNDFTDRKLARKKSSA 1365
            DGS++QF YG+DGVDV ++S +T FE LA N++++ +K  ++ +FN +  +         
Sbjct: 1049 DGSIVQFNYGDDGVDVHQTSFITEFEALAVNEEVVCEKFGQDGKFNGYIQK--------- 1099

Query: 1366 AVCDTTDIPEKLKEKAHKYIYKLSEKEKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGV 1545
                   +P++L++K  K+I    E+ +    ++K K F++L++ KYISSLA+PGE VGV
Sbjct: 1100 -------LPKELRKKTKKFIEGFMEERQDFDNMKKQKDFVNLVKQKYISSLAQPGEPVGV 1152

Query: 1546 VAGQSVGEPSTQMTLNTFHFAGRGEMNVTLGIPRLREILMAASKNILTPVMTCRVKDGKT 1725
            +A QSVGEPSTQMTLNTFH AGRGE+NVTLGIPRL+EILM A+ +I TP+MTC ++ G++
Sbjct: 1153 LAAQSVGEPSTQMTLNTFHLAGRGEVNVTLGIPRLQEILMTAANDIKTPIMTCPLQMGRS 1212

Query: 1726 REDAERLAGKFRRIRFADLIETMDVGVVPFAVKAGVMQNTYKLKIKLYSPENYPSHSGIS 1905
            ++DAERLA K +++  AD+ E+M+V +VPF V+     + YKLK+KLY P  YP H+GIS
Sbjct: 1213 KDDAERLAAKLKKVTVADITESMEVSIVPFTVQDHQTCSIYKLKMKLYEPALYPPHTGIS 1272

Query: 1906 LEKCKSIFEEVFSKEM 1953
            LE C+   E VF +E+
Sbjct: 1273 LEDCEETLEAVFVREL 1288



 Score =  204 bits (518), Expect = 3e-49
 Identities = 107/204 (52%), Positives = 144/204 (70%), Gaps = 18/204 (8%)
 Frame = +1

Query: 2482 HILLAPIAEKVANKVYVQSVTNIDKCAVIEITE-----------KKDNPP------IPAL 2610
            HILLA IA+K ANKVY++S   ID C VI+  +           K++N P      +PAL
Sbjct: 1466 HILLAQIAQKAANKVYIRSSGKIDLCQVIDCNKDQVIYYGRDPKKRENIPGEEKKKLPAL 1525

Query: 2611 QTNGINFEAFWKLDNELDINRLMTNDINKVLEVYGVEAACATIVLEVQNVFDSYGITVDR 2790
            QT G++F AFWK+ +ELD+  + +N+++ +L  +GVEAA ATI+ EV NVF++YG+ V+ 
Sbjct: 1526 QTAGVDFTAFWKMQDELDVRYVYSNNVHAMLNTFGVEAARATIIKEVFNVFNAYGVKVNI 1585

Query: 2791 RHLSLIADFMTFNGGYRPLNRI-GIDSSTSPFLKISFETATKFLVDSCLQGETDYLASPS 2967
            RHLSLIADFMT +GGYRP+NR  GI  S SPF K++FETA+KF+V++   G TD L S S
Sbjct: 1586 RHLSLIADFMTHSGGYRPMNRHGGIAESVSPFSKMTFETASKFIVEAASHGMTDNLESAS 1645

Query: 2968 ARIVLGQVAKMGTGCFDILQNLEV 3039
            ARI LG   KMGTGCFD++Q +E+
Sbjct: 1646 ARICLGLPVKMGTGCFDLMQKIEI 1669


>ref|XP_002277555.1| PREDICTED: DNA-directed RNA polymerase I subunit RPA1-like [Vitis
            vinifera]
          Length = 1740

 Score =  699 bits (1805), Expect = 0.0
 Identities = 361/676 (53%), Positives = 466/676 (68%), Gaps = 26/676 (3%)
 Frame = +1

Query: 4    VPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVA 183
            VP+ GDPIRGLIQDHIVSA LLTK+DTFL++E+Y  L+YS+ +            + KV+
Sbjct: 701  VPSRGDPIRGLIQDHIVSAVLLTKKDTFLTREQYNQLLYSSGLSSGSGSFIGKPGK-KVS 759

Query: 184  ICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRE-- 357
            +   +     L PA+WKP PLW+GKQVIT +L++ITRG  PF+ +K G++P  Y+G E  
Sbjct: 760  VLDSEDEMQPLLPAIWKPEPLWSGKQVITAVLNHITRGRKPFTTEKDGKIPREYFGSEID 819

Query: 358  -----------------------SWELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYG 468
                                     E +++I  NELV GVIDKAQF KYGLVH+V ELYG
Sbjct: 820  EKKSGKGKDPGSDRRKEKRIEKKHGEYKLLIHKNELVRGVIDKAQFDKYGLVHMVQELYG 879

Query: 469  ADAAGRLLSVFSRLFTCFMQMHGFTCGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFL 648
            ++ AG LLSV SRLFT F+QMHGFTCG  DLL+ P+               G+  H +F+
Sbjct: 880  SNTAGILLSVLSRLFTVFLQMHGFTCGVDDLLISPNYDIARKIELDKSENIGELVHCKFI 939

Query: 649  GKDAXXXXXXXXXXXXXXXLRSKGESSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFL 828
            G +                + S GE++  RLDR+M   LN++TS+VN  +   GL KPF 
Sbjct: 940  GSNHGKIDPVKLQVEVEKIILSNGEAAITRLDRMMKNELNELTSKVNKDLLLKGLVKPFP 999

Query: 829  KNCLSLMTLTGAKGGMVNFTQISSLLGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGF 1008
            KNCLSLMT TGAKG  VNF+QISS LGQQ+LEGKRVPRM+SGKTLPCF PWD   RAGGF
Sbjct: 1000 KNCLSLMTTTGAKGSTVNFSQISSFLGQQDLEGKRVPRMVSGKTLPCFPPWDCAARAGGF 1059

Query: 1009 ISDRFLTGLRPQEYYFHCMAGRDGLVDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDS 1188
            ISDRFLTGL PQEYYFHCMAGR+GLVDTAVKTSRSGYLQRCLIKNLECL V YD+TVRDS
Sbjct: 1060 ISDRFLTGLHPQEYYFHCMAGREGLVDTAVKTSRSGYLQRCLIKNLECLKVCYDYTVRDS 1119

Query: 1189 DGSVIQFCYGEDGVDVTKSSCLTGFEILAANQKLLSQKLCKE-QFNDFTDRKLARKKSSA 1365
            DGS++QF YG+DGVDV ++S +T FE LA N++++ +K  ++ +FN +  +         
Sbjct: 1120 DGSIVQFNYGDDGVDVHQTSFITEFEALAVNEEVVCEKFGQDGKFNGYIQK--------- 1170

Query: 1366 AVCDTTDIPEKLKEKAHKYIYKLSEKEKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGV 1545
                   +P++L++K  K+I    E+ +    ++K K F++L++ KYISSLA+PGE VGV
Sbjct: 1171 -------LPKELRKKTKKFIEGFMEERQDFDNMKKQKDFVNLVKQKYISSLAQPGEPVGV 1223

Query: 1546 VAGQSVGEPSTQMTLNTFHFAGRGEMNVTLGIPRLREILMAASKNILTPVMTCRVKDGKT 1725
            +A QSVGEPSTQMTLNTFH AGRGE+NVTLGIPRL+EILM A+ +I TP+MTC ++ G++
Sbjct: 1224 LAAQSVGEPSTQMTLNTFHLAGRGEVNVTLGIPRLQEILMTAANDIKTPIMTCPLQMGRS 1283

Query: 1726 REDAERLAGKFRRIRFADLIETMDVGVVPFAVKAGVMQNTYKLKIKLYSPENYPSHSGIS 1905
            ++DAERLA K +++  AD+ E+M+V +VPF V+     + YKLK+KLY P  YP H+GIS
Sbjct: 1284 KDDAERLAAKLKKVTVADITESMEVSIVPFTVQDHQTCSIYKLKMKLYEPALYPPHTGIS 1343

Query: 1906 LEKCKSIFEEVFSKEM 1953
            LE C+   E VF +E+
Sbjct: 1344 LEDCEETLEAVFVREL 1359



 Score =  204 bits (518), Expect = 3e-49
 Identities = 107/204 (52%), Positives = 144/204 (70%), Gaps = 18/204 (8%)
 Frame = +1

Query: 2482 HILLAPIAEKVANKVYVQSVTNIDKCAVIEITE-----------KKDNPP------IPAL 2610
            HILLA IA+K ANKVY++S   ID C VI+  +           K++N P      +PAL
Sbjct: 1537 HILLAQIAQKAANKVYIRSSGKIDLCQVIDCNKDQVIYYGRDPKKRENIPGEEKKKLPAL 1596

Query: 2611 QTNGINFEAFWKLDNELDINRLMTNDINKVLEVYGVEAACATIVLEVQNVFDSYGITVDR 2790
            QT G++F AFWK+ +ELD+  + +N+++ +L  +GVEAA ATI+ EV NVF++YG+ V+ 
Sbjct: 1597 QTAGVDFTAFWKMQDELDVRYVYSNNVHAMLNTFGVEAARATIIKEVFNVFNAYGVKVNI 1656

Query: 2791 RHLSLIADFMTFNGGYRPLNRI-GIDSSTSPFLKISFETATKFLVDSCLQGETDYLASPS 2967
            RHLSLIADFMT +GGYRP+NR  GI  S SPF K++FETA+KF+V++   G TD L S S
Sbjct: 1657 RHLSLIADFMTHSGGYRPMNRHGGIAESVSPFSKMTFETASKFIVEAASHGMTDNLESAS 1716

Query: 2968 ARIVLGQVAKMGTGCFDILQNLEV 3039
            ARI LG   KMGTGCFD++Q +E+
Sbjct: 1717 ARICLGLPVKMGTGCFDLMQKIEI 1740


>gb|ACJ63314.1| RNA polymerase I large subunit [Illicium parviflorum]
          Length = 540

 Score =  692 bits (1786), Expect = 0.0
 Identities = 344/524 (65%), Positives = 409/524 (78%)
 Frame = +1

Query: 4    VPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVA 183
            VPTSGDPIRGLIQDHIVSA LLTK+DTFL+KE+YQ+LVY+AC+             PKV 
Sbjct: 25   VPTSGDPIRGLIQDHIVSAALLTKKDTFLTKEDYQHLVYTACVSTTAPVFQRGKSFPKVG 84

Query: 184  ICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRESW 363
            I K+D  F+SLPPA+ KP PLWTGKQVITT+L Y+T+GS+PF+MK+ G+VP  YWG+ S 
Sbjct: 85   IVKDDHTFLSLPPAILKPEPLWTGKQVITTVLHYVTKGSVPFTMKRAGKVPGDYWGKNSG 144

Query: 364  ELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFTCFMQMHGFT 543
            EL+V IQNNEL+CGVIDKAQFGK+GLVH+V ELYGAD AG LLSVFSRLFT ++QMHGFT
Sbjct: 145  ELKVRIQNNELICGVIDKAQFGKHGLVHIVQELYGADVAGHLLSVFSRLFTGYLQMHGFT 204

Query: 544  CGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFLGKDAXXXXXXXXXXXXXXXLRSKGE 723
            CG  DLLL P                GD  H QF+G +                LRSKG+
Sbjct: 205  CGVADLLLVPQAEDDRQKKLEKSEELGDNVHFQFIGANGDQIDLESMEEETEKHLRSKGD 264

Query: 724  SSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGMVNFTQISSL 903
            ++SARLDRLMS ALN++TSEVN ++FP GL KPF  NCLSLMT+TGAKGG+VNFTQISSL
Sbjct: 265  AASARLDRLMSSALNRVTSEVNNALFPKGLLKPFPSNCLSLMTMTGAKGGLVNFTQISSL 324

Query: 904  LGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFISDRFLTGLRPQEYYFHCMAGRDGL 1083
            LGQQELEGKRVPR+ISGKTLPCF PWD++ RAGGFISDRFLTGLRPQEYYFHCMAGRDGL
Sbjct: 325  LGQQELEGKRVPRVISGKTLPCFLPWDSRARAGGFISDRFLTGLRPQEYYFHCMAGRDGL 384

Query: 1084 VDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDVTKSSCLTGF 1263
            VDTA+KT+RSGYLQRCLIKNLECL V+YD+TVRDSDGSVIQF YGEDG+DV K+SCLT F
Sbjct: 385  VDTAIKTTRSGYLQRCLIKNLECLKVYYDYTVRDSDGSVIQFNYGEDGLDVMKTSCLTQF 444

Query: 1264 EILAANQKLLSQKLCKEQFNDFTDRKLARKKSSAAVCDTTDIPEKLKEKAHKYIYKLSEK 1443
            ++LAAN KL+SQKL K+QF+          KS ++     D+PE L+ K   +I  LS++
Sbjct: 445  KVLAANNKLVSQKLGKDQFDG--------SKSLSSDSYIKDLPEALENKVQDFISGLSKQ 496

Query: 1444 EKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVGEPS 1575
            ++    L+K   FL+L+R+KY+SSLA+PGE VGV+AGQS+GEPS
Sbjct: 497  KRQSLNLKKRTGFLNLMRLKYMSSLAQPGEPVGVIAGQSIGEPS 540


>gb|AAS55444.1| RNA polymerase I largest subunit [Zamia muricata]
          Length = 551

 Score =  690 bits (1781), Expect = 0.0
 Identities = 341/526 (64%), Positives = 408/526 (77%), Gaps = 2/526 (0%)
 Frame = +1

Query: 4    VPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVA 183
            VPTSGDPIRGLIQDH+VSATLLTKRDTFL+K++YQ+LVYSAC+             PK+ 
Sbjct: 27   VPTSGDPIRGLIQDHVVSATLLTKRDTFLTKDDYQHLVYSACVSTTPPVFQRAKSCPKIG 86

Query: 184  ICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRESW 363
            I K+D  F+SLPPA+WKP PLWTGKQVITT+L+Y+T+G  PF+MKK G+VP  YWG+ S 
Sbjct: 87   IVKDDYSFLSLPPAIWKPQPLWTGKQVITTVLNYVTKGHPPFTMKKAGKVPGDYWGKSSG 146

Query: 364  ELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFTCFMQMHGFT 543
            EL+ VIQNNEL+CGVIDKAQFGKYGLVH V ELYGA  AG LLSVFSRLFT ++QMHGFT
Sbjct: 147  ELKAVIQNNELICGVIDKAQFGKYGLVHTVQELYGAGTAGHLLSVFSRLFTGYLQMHGFT 206

Query: 544  CGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFLGKDAXXXXXXXXXXXXXXXLRSKGE 723
            CG  DLLL P                GD  H+QF+G D                LRSKGE
Sbjct: 207  CGVADLLLVPQAEDDREKKLEKSETLGDSVHSQFIGADGDQREFEGMEEDIEKHLRSKGE 266

Query: 724  SSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGMVNFTQISSL 903
             +S+RLDRLMS ALN++TS+VN  +FP GL KPF  NCLSLMT+TGAKGG+VNFTQISSL
Sbjct: 267  VASSRLDRLMSSALNRLTSDVNNGLFPKGLLKPFPSNCLSLMTMTGAKGGLVNFTQISSL 326

Query: 904  LGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFISDRFLTGLRPQEYYFHCMAGRDGL 1083
            LGQQELEGKRVPRM+SGKTLPCF PWD++ RAGGFI DRFLTGLRPQEYYFHCMAGRDGL
Sbjct: 327  LGQQELEGKRVPRMVSGKTLPCFPPWDSRARAGGFIGDRFLTGLRPQEYYFHCMAGRDGL 386

Query: 1084 VDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDVTKSSCLTGF 1263
            VDTA+KTSRSGYLQRCLIKNLECL V YD+TVRDSDGSVIQF YGEDG+DV K+SCLT F
Sbjct: 387  VDTAIKTSRSGYLQRCLIKNLECLKVHYDYTVRDSDGSVIQFTYGEDGLDVMKTSCLTEF 446

Query: 1264 EILAANQKLLSQKLCKEQFNDFTDRKLARKKSSAAVCD--TTDIPEKLKEKAHKYIYKLS 1437
            ++LAAN++L+SQKL + +F + T+ + +   +     +    ++PE  + K   +   LS
Sbjct: 447  KVLAANRELVSQKLGESKFME-TNCQYSNYSNKERPLNGYMEELPEAFENKLQTFFNGLS 505

Query: 1438 EKEKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVGEPS 1575
            ++++   KLRK  +FL+L+R+KYISSLA+PGE+VGV+AGQS+GEPS
Sbjct: 506  KQKRKSLKLRKQSRFLNLMRLKYISSLAQPGESVGVIAGQSIGEPS 551


>gb|AAS55445.1| RNA polymerase I largest subunit [Ginkgo biloba]
          Length = 542

 Score =  689 bits (1779), Expect = 0.0
 Identities = 344/524 (65%), Positives = 407/524 (77%)
 Frame = +1

Query: 4    VPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVA 183
            VPTSGDPIRGLIQDHIVSA LLTK+DTFL+KE+YQ+LVY+AC+             PKV 
Sbjct: 27   VPTSGDPIRGLIQDHIVSAALLTKKDTFLTKEDYQHLVYTACVSTTAPVFQRGKSFPKVG 86

Query: 184  ICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRESW 363
            I K+D  F+SLPPA+ KP PLWTGKQVITT+L Y+T+GS+PF+MK+ G+VP  YWG+ S 
Sbjct: 87   IVKDDHTFLSLPPAILKPEPLWTGKQVITTVLHYVTKGSVPFTMKRAGKVPGDYWGKNSG 146

Query: 364  ELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFTCFMQMHGFT 543
            EL+V IQNNEL+CGVIDKAQFGK+GLVH+V ELYGAD AG LLSVFSRLFT ++QMHGFT
Sbjct: 147  ELKVRIQNNELICGVIDKAQFGKHGLVHIVQELYGADVAGHLLSVFSRLFTGYLQMHGFT 206

Query: 544  CGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFLGKDAXXXXXXXXXXXXXXXLRSKGE 723
            CG  DLLL P                GD  H QF+G +                LRSKG+
Sbjct: 207  CGVADLLLVPQAEDDRQKKLEKSEELGDNVHFQFIGANGDQIDLESMEEETEKHLRSKGD 266

Query: 724  SSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGMVNFTQISSL 903
            ++SARLDRLMS ALN++TSEVN ++FP GL KPF  NCLSLMT+TGAKGG+VNFTQISSL
Sbjct: 267  AASARLDRLMSSALNRVTSEVNNALFPKGLLKPFPSNCLSLMTMTGAKGGLVNFTQISSL 326

Query: 904  LGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFISDRFLTGLRPQEYYFHCMAGRDGL 1083
            LGQQELEGKRVPRMISGKTLPCF PWD++ RAGGFISDRFLTGLRPQEYYF CMA RDGL
Sbjct: 327  LGQQELEGKRVPRMISGKTLPCFLPWDSRARAGGFISDRFLTGLRPQEYYFQCMAARDGL 386

Query: 1084 VDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDVTKSSCLTGF 1263
            VDTA+KTSRSGYLQRCLIKNLECL V+YD+TVRDSDGSVIQF YGEDG+DV K+SCLT F
Sbjct: 387  VDTAIKTSRSGYLQRCLIKNLECLKVYYDYTVRDSDGSVIQFNYGEDGLDVMKTSCLTQF 446

Query: 1264 EILAANQKLLSQKLCKEQFNDFTDRKLARKKSSAAVCDTTDIPEKLKEKAHKYIYKLSEK 1443
            ++LAAN KL+SQKL K+QF+          KS ++     D+PE L+ K   +I  LS++
Sbjct: 447  KVLAANNKLVSQKLGKDQFDG--------SKSLSSDSYIKDLPEALENKVQDFINGLSKQ 498

Query: 1444 EKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVGEPS 1575
            ++    L+K   FL+L+R+KY+SSLA+PGE VGV+AGQS+GEPS
Sbjct: 499  KRQSLNLKKRTGFLNLMRLKYMSSLAQPGEPVGVIAGQSIGEPS 542


>ref|XP_004967186.1| PREDICTED: DNA-directed RNA polymerase I subunit rpa1-like [Setaria
            italica]
          Length = 1682

 Score =  672 bits (1735), Expect = 0.0
 Identities = 367/670 (54%), Positives = 453/670 (67%), Gaps = 21/670 (3%)
 Frame = +1

Query: 7    PTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQP--KV 180
            P SGD +RGLIQDHIV A LLTK+DT LS+EEY  LVY +C+            QP  KV
Sbjct: 641  PRSGDAVRGLIQDHIVGAVLLTKQDTLLSREEYSQLVYGSCVPSNWGPR-----QPGIKV 695

Query: 181  AICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRV------PAI 342
            +  K+D     + PA+ KP PLWTGKQVITTIL+++T+G  PF++++ G++      P  
Sbjct: 696  SAIKDDDALGFVLPAILKPKPLWTGKQVITTILNHLTKGRSPFTVEQKGKISEEHLTPKK 755

Query: 343  YWGRESW------ELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFS 504
            +   ES       EL + I+NNEL+ G+IDKAQFG+YG+VH VHELYGAD AG LLS FS
Sbjct: 756  FEESESERKIAISELVLYIKNNELIKGMIDKAQFGQYGIVHTVHELYGADTAGILLSTFS 815

Query: 505  RLFTCFMQMHGFTCGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFL--GKDAXXXXXX 678
            RLFT F+Q HGFTCG  DLLL                   +KAH  F+  GKD       
Sbjct: 816  RLFTLFLQFHGFTCGVDDLLLCQKADEARRSIISESDKYSEKAHGTFIKTGKDGEELQME 875

Query: 679  XXXXXXXXXLRSKGESSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLT 858
                     +R  GES++  +DR +S AL+ ITS+VN +VFP GL+KPF  NCL+LMT T
Sbjct: 876  VEKV-----IRRDGESATVNMDREISNALSNITSDVNKNVFPYGLQKPFPGNCLTLMTAT 930

Query: 859  GAKGGMVNFTQISSLLGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFISDRFLTGLR 1038
            GAKGG VN  QISSLLGQQELEGKRVPRM+SGKTLPCF PWDT  RAGGFISDRFLTGLR
Sbjct: 931  GAKGGDVNMYQISSLLGQQELEGKRVPRMVSGKTLPCFLPWDTSSRAGGFISDRFLTGLR 990

Query: 1039 PQEYYFHCMAGRDGLVDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYG 1218
            PQEYYFHCMAGR+GL DTAVKTSRSGYLQRCLIK LE L V YDHTVRD DGS++QFCYG
Sbjct: 991  PQEYYFHCMAGREGLCDTAVKTSRSGYLQRCLIKCLESLKVSYDHTVRDVDGSIVQFCYG 1050

Query: 1219 EDGVDVTKSSCLTGFEILAANQKLLSQKLCKEQFNDFTDRKLARKKSSAAVCDTTDIPEK 1398
            EDGVDV K+S L  F+ LA N+K++  K+   + N    +              T +P+K
Sbjct: 1051 EDGVDVLKTSFLNKFKELADNKKVVLDKIKGHKQNQLLSKPNGY---------ITTLPKK 1101

Query: 1399 LKEKAHKYIYKLSEK-----EKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSV 1563
            L  +A +++  L EK     +K L    K K  + LL+VKY+ SL +PGEAVGVVA QS+
Sbjct: 1102 LVAEAKEFLKLLKEKKSSDIKKGLMCDIKKKGLMKLLKVKYLYSLVDPGEAVGVVAAQSI 1161

Query: 1564 GEPSTQMTLNTFHFAGRGEMNVTLGIPRLREILMAASKNILTPVMTCRVKDGKTREDAER 1743
            GEPSTQMTLNTFH AGRGEMNVTLGIPRL+EILM AS NI TP+M C + +  TR+DA R
Sbjct: 1162 GEPSTQMTLNTFHLAGRGEMNVTLGIPRLKEILMTASANISTPIMVCPLLEKWTRDDARR 1221

Query: 1744 LAGKFRRIRFADLIETMDVGVVPFAVKAGVMQNTYKLKIKLYSPENYPSHSGISLEKCKS 1923
            +A K RR+R AD++E ++V  VPF    G +   YKL++KLY  ++YP  S +++++C++
Sbjct: 1222 VAAKLRRVRVADIVEKIEVCTVPFYNTNGHVSTLYKLQMKLYPQKHYPPQSDLTVDECQT 1281

Query: 1924 IFEEVFSKEM 1953
                VF   M
Sbjct: 1282 TLRTVFVDAM 1291



 Score =  213 bits (543), Expect = 3e-52
 Identities = 108/192 (56%), Positives = 141/192 (73%), Gaps = 1/192 (0%)
 Frame = +1

Query: 2461 YSVMENSHILLAPIAEKVANKVYVQSVTNIDKCAVIEITEKKDNPPIPALQTNGINFEAF 2640
            Y+  +  HILLA IA+K A  ++V++  NIDKC   E+ EKK+      L+T+G+NFE F
Sbjct: 1486 YAFCDEPHILLAQIAQKTARSIFVRACKNIDKC---EVEEKKEKGSSAVLKTSGVNFEVF 1542

Query: 2641 WKLDNELDINRLMTNDINKVLEVYGVEAACATIVLEVQNVFDSYGITVDRRHLSLIADFM 2820
            W L   + IN++ TNDI+ +L+ YGVEAA ATI+ EV +VF  YGI VD RHLS+IADFM
Sbjct: 1543 WNLRKYISINKITTNDIHAMLKTYGVEAARATIIEEVNHVFGVYGIKVDPRHLSMIADFM 1602

Query: 2821 TFNGGYRPLNRIGIDS-STSPFLKISFETATKFLVDSCLQGETDYLASPSARIVLGQVAK 2997
            TF+GGYRP+NR+G+   STSPF K++FETATKF+VD+   GE+D L  PSA I LG+ AK
Sbjct: 1603 TFDGGYRPMNRLGMGQFSTSPFGKMTFETATKFIVDAATHGESDSLECPSASICLGKPAK 1662

Query: 2998 MGTGCFDILQNL 3033
            +GTG F +LQNL
Sbjct: 1663 VGTGTFGLLQNL 1674


>gb|AAS55437.1| RNA polymerase I largest subunit [Taxus canadensis]
          Length = 545

 Score =  672 bits (1734), Expect = 0.0
 Identities = 339/524 (64%), Positives = 406/524 (77%)
 Frame = +1

Query: 4    VPTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVA 183
            VPTSGDPIRGLIQDHIVSATLLTKRDTFL KE+YQ+LVY+AC+             PKV 
Sbjct: 27   VPTSGDPIRGLIQDHIVSATLLTKRDTFLIKEDYQHLVYNACVSNSPPVFQRGKSLPKVG 86

Query: 184  ICKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWGRESW 363
            I ++D  F+S+ P +WKP PLWTGKQVITT+L+++T G   F  +++  VP  YWG+ S 
Sbjct: 87   IIEDDYGFLSVAPTIWKPEPLWTGKQVITTVLNHVT-GETVFYHEQIWEVPGDYWGKSSG 145

Query: 364  ELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFTCFMQMHGFT 543
            EL+VVIQNNE +CG+IDKAQFGKYGLVH+V ELYGA+ AG LLS+FSRLFT ++QMHGFT
Sbjct: 146  ELDVVIQNNEHICGIIDKAQFGKYGLVHIVQELYGANVAGHLLSIFSRLFTGYLQMHGFT 205

Query: 544  CGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFLGKDAXXXXXXXXXXXXXXXLRSKGE 723
            CG  DLLL P                G+K H QFLG +                LRSKGE
Sbjct: 206  CGIADLLLKPGAEVRRQKILAKSEDLGEKVHLQFLGGNEDLVHMGEDIEKL---LRSKGE 262

Query: 724  SSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGMVNFTQISSL 903
            ++SARLDRLMS ALN+ITS+VN S+FP GL KPF  NCLSLMT TGAKGG+V+FTQISSL
Sbjct: 263  TASARLDRLMSSALNRITSDVNNSLFPKGLLKPFPSNCLSLMTTTGAKGGLVDFTQISSL 322

Query: 904  LGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFISDRFLTGLRPQEYYFHCMAGRDGL 1083
            LGQQELEGKRVPRM+SGKTLPCF PWDT+ RAGGFISDRFLTGLRPQEYYFHCMAGRDGL
Sbjct: 323  LGQQELEGKRVPRMVSGKTLPCFLPWDTRARAGGFISDRFLTGLRPQEYYFHCMAGRDGL 382

Query: 1084 VDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDVTKSSCLTGF 1263
            VDTAVKTSRSGYLQRCLIKNLECL V+YD+T+RDSDGS+IQF YGEDGVDV K+SCLT F
Sbjct: 383  VDTAVKTSRSGYLQRCLIKNLECLKVYYDYTIRDSDGSIIQFYYGEDGVDVMKTSCLTQF 442

Query: 1264 EILAANQKLLSQKLCKEQFNDFTDRKLARKKSSAAVCDTTDIPEKLKEKAHKYIYKLSEK 1443
            ++LAANQKL+ Q+L K+QF++   +   +  S  +   T D+PE LK+KA  +I  LS++
Sbjct: 443  DVLAANQKLVIQRLGKDQFDELIHQSSKKGNSLVSDSHTNDLPEALKKKALGFIDSLSKE 502

Query: 1444 EKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVGEPS 1575
            ++    L + + FL+L+R+KYI+SLA+PGE VGV+AGQS+GEPS
Sbjct: 503  KRQSLNLDR-RNFLNLMRLKYITSLAQPGEPVGVIAGQSIGEPS 545


>ref|XP_002526734.1| DNA-directed RNA polymerase I largest subunit, putative [Ricinus
            communis] gi|223533923|gb|EEF35648.1| DNA-directed RNA
            polymerase I largest subunit, putative [Ricinus communis]
          Length = 1686

 Score =  657 bits (1694), Expect = 0.0
 Identities = 348/675 (51%), Positives = 453/675 (67%), Gaps = 26/675 (3%)
 Frame = +1

Query: 7    PTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVAI 186
            P++G+P+RGLIQDHIVSA LLTK+DTFLS++E+  L+YS+ +              KV  
Sbjct: 631  PSNGEPLRGLIQDHIVSAVLLTKKDTFLSQDEFNQLLYSSGVSTVGPNSFHGRPGQKVLW 690

Query: 187  CKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWG----- 351
             + +    +LPPA+WKP PLWTGKQVIT IL++IT    PF+++K  ++P+ ++      
Sbjct: 691  SRSEDEIQTLPPAIWKPKPLWTGKQVITAILNHITSDHPPFTVEKDAKIPSNFFKSRANE 750

Query: 352  ----------------RESWELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAG 483
                            +E  E ++++  NELV GVIDK QFG+YGLVH VHEL G+  AG
Sbjct: 751  DKPCQEEKSDKDAPAEKEPDEEKMLVYKNELVRGVIDKGQFGEYGLVHTVHELLGSHTAG 810

Query: 484  RLLSVFSRLFTCFMQMHGFTCGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFLG--KD 657
             LLSV SRLFT ++QMHGFTCG  DLL+  +               G+  H  F+G   +
Sbjct: 811  ILLSVLSRLFTAYLQMHGFTCGVDDLLILTNKDEERKKQLEWCEKSGEAVHRNFIGIKDE 870

Query: 658  AXXXXXXXXXXXXXXXLRSKGESSSARLDRLMSGALN-KITSEVNGSVFPDGLRKPFLKN 834
                            +RS G+S+ A LDR MS  LN K +S V  ++  DGL KP  KN
Sbjct: 871  KIKIDPVAMQLNIEKTIRSDGDSALAYLDRQMSNELNTKTSSGVISNLLSDGLLKPSGKN 930

Query: 835  CLSLMTLTGAKGGMVNFTQISSLLGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFIS 1014
            C+SLMT +GAKG  VNF QISS LGQQELEGKRVPRM+SGKTLPCF PWD   R+GG+I+
Sbjct: 931  CISLMTTSGAKGSKVNFQQISSFLGQQELEGKRVPRMVSGKTLPCFHPWDWAARSGGYIT 990

Query: 1015 DRFLTGLRPQEYYFHCMAGRDGLVDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDG 1194
            DRFLTGLRPQEYYFHCMAGR+GLVDTAVKTSRSGYLQRCLIKNLECL + YDHTVRD+DG
Sbjct: 991  DRFLTGLRPQEYYFHCMAGREGLVDTAVKTSRSGYLQRCLIKNLECLKIGYDHTVRDADG 1050

Query: 1195 SVIQFCYGEDGVDVTKSSCLTGFEILAANQKLLSQKLCKE--QFNDFTDRKLARKKSSAA 1368
            SV+QF YGEDGVDV ++S +  F+ LA NQ ++ ++   +   FN +             
Sbjct: 1051 SVVQFYYGEDGVDVHQTSFIAKFKELALNQDMIYKRSGGQLGAFNSY------------- 1097

Query: 1369 VCDTTDIPEKLKEKAHKYIYKLSEKEKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVV 1548
                +++PE LKEKA +++   S   +    L K +   +L++ K++ SLA+PGE VGV+
Sbjct: 1098 ---ISELPEALKEKADRFLDDFSIMGRIASNLVKREDLYNLMKQKFLLSLAQPGEPVGVL 1154

Query: 1549 AGQSVGEPSTQMTLNTFHFAGRGEMNVTLGIPRLREILMAASKNILTPVMTCRVKDGKTR 1728
            A QSVGEPSTQMTLNTFH AGRGEMNVTLGIPRL+EILM AS +I TP+MTC +++G+T 
Sbjct: 1155 AAQSVGEPSTQMTLNTFHLAGRGEMNVTLGIPRLQEILMTASIDIKTPIMTCPLQEGRTN 1214

Query: 1729 EDAERLAGKFRRIRFADLIETMDVGVVPFAVKAGVMQNTYKLKIKLYSPENYPSHSGISL 1908
            EDA+ LA K R++  AD++E+M+V VVPFA++ G +   YKLK+KLY P +YP ++ IS+
Sbjct: 1215 EDADHLADKLRKVTVADIVESMEVSVVPFAIQDGGVCRIYKLKMKLYRPAHYPQYANISV 1274

Query: 1909 EKCKSIFEEVFSKEM 1953
            E  +   E VF +E+
Sbjct: 1275 EDWEETLEVVFLREL 1289



 Score =  194 bits (494), Expect = 2e-46
 Identities = 102/204 (50%), Positives = 136/204 (66%), Gaps = 18/204 (8%)
 Frame = +1

Query: 2482 HILLAPIAEKVANKVYVQSVTNIDKCAVIEITEKK------------DNPP-----IPAL 2610
            HILLA IA+K A KVY+Q+   I++C V +  E +            D  P     +PAL
Sbjct: 1483 HILLAEIAQKTAKKVYIQNPGKIEQCRVTDCKESQVIYYGKDPKERVDLKPDVKEKVPAL 1542

Query: 2611 QTNGINFEAFWKLDNELDINRLMTNDINKVLEVYGVEAACATIVLEVQNVFDSYGITVDR 2790
               G++F  FWK+ + LD+  + +N+I+ +L+ YGVEAA  TI+ E+ +VF SYGI V  
Sbjct: 1543 HATGVDFNTFWKMQDHLDVRYIYSNNIHAMLKTYGVEAARETIIREINHVFKSYGIAVSN 1602

Query: 2791 RHLSLIADFMTFNGGYRPLNRI-GIDSSTSPFLKISFETATKFLVDSCLQGETDYLASPS 2967
            RHLSLIADFMT  GGYRP++R+ GI  S SPF K+SFETA+KF+V++ L GE D L +PS
Sbjct: 1603 RHLSLIADFMTHTGGYRPMSRMGGIAESISPFSKMSFETASKFIVEAALHGEIDNLETPS 1662

Query: 2968 ARIVLGQVAKMGTGCFDILQNLEV 3039
            ARI LG   KMGTG FD++Q LE+
Sbjct: 1663 ARICLGLPVKMGTGSFDLMQKLEI 1686


>ref|XP_003559192.1| PREDICTED: DNA-directed RNA polymerase I subunit rpa1-like
            [Brachypodium distachyon]
          Length = 1868

 Score =  651 bits (1679), Expect = 0.0
 Identities = 339/660 (51%), Positives = 448/660 (67%), Gaps = 11/660 (1%)
 Frame = +1

Query: 7    PTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVAI 186
            P SGD +RGLIQDHIVSA LLTK DTF+S+EEY  LVY +C+              +V++
Sbjct: 838  PRSGDAVRGLIQDHIVSAVLLTKLDTFISREEYSQLVYGSCVSSTRSPCQSGK---RVSV 894

Query: 187  CKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYW------ 348
             K+  +   LPPA+ KP PLWTGKQVITTIL+++T+G  PF+++K G++P  Y       
Sbjct: 895  MKDGDILELLPPAILKPKPLWTGKQVITTILNHLTKGHPPFTVEKKGKIPVKYLIPKERH 954

Query: 349  ----GRESWELEVVIQNNELVCGVIDKAQFGKYGLVHVVHELYGADAAGRLLSVFSRLFT 516
                  +  E  + I +NEL+ G+IDK QFG YG+VH V+ELYGA+ AGRLLS+FSRLFT
Sbjct: 955  GDKDNAKDSEQVLYIHDNELIKGMIDKDQFGNYGIVHTVYELYGAETAGRLLSIFSRLFT 1014

Query: 517  CFMQMHGFTCGAVDLLLFPHXXXXXXXXXXXXXXXGDKAHAQFLGKDAXXXXXXXXXXXX 696
             F+Q+HGFTCG  DLLLF                  ++ H +F                 
Sbjct: 1015 LFLQLHGFTCGIDDLLLFQESDKQRTETLMTSEKCSEEVHRKFTCAGDYDEDPLKLQMEV 1074

Query: 697  XXXLRSKGESSSARLDRLMSGALNKITSEVNGSVFPDGLRKPFLKNCLSLMTLTGAKGGM 876
               +R  GES++  LD++M  ALN + SEVN  +FP GL+KPF +NCL+LMT TGAKGG 
Sbjct: 1075 EKVVRRIGESATDTLDKMMLSALNGLQSEVNRRLFPYGLQKPFPRNCLTLMTATGAKGGE 1134

Query: 877  VNFTQISSLLGQQELEGKRVPRMISGKTLPCFSPWDTQPRAGGFISDRFLTGLRPQEYYF 1056
            VN TQI+SLLG Q+LEG RVPRMISGK+LPCF PWDT  RAGGF+SDRFLTGLRPQEYYF
Sbjct: 1135 VNMTQITSLLGSQDLEGARVPRMISGKSLPCFPPWDTSSRAGGFVSDRFLTGLRPQEYYF 1194

Query: 1057 HCMAGRDGLVDTAVKTSRSGYLQRCLIKNLECLTVFYDHTVRDSDGSVIQFCYGEDGVDV 1236
            HCMAGR+GL+DTAVKTSRSGYLQRCL+K+LE L V YDHTVR+ DGS++QF YGEDGVDV
Sbjct: 1195 HCMAGRNGLIDTAVKTSRSGYLQRCLVKSLESLFVAYDHTVRNVDGSIVQFRYGEDGVDV 1254

Query: 1237 TKSSCLTGFEILAANQKLL-SQKLCKEQFNDFTDRKLARKKSSAAVCDTTDIPEKLKEKA 1413
             KS+ L  F+     ++L  ++K   ++   +T   ++ + +       T++PE L ++A
Sbjct: 1255 HKSNFLDKFQDKDMFKELADNRKAVLDRLGRYTGDHMSLQSNY-----ITELPEALTDRA 1309

Query: 1414 HKYIYKLSEKEKHLWKLRKPKKFLDLLRVKYISSLAEPGEAVGVVAGQSVGEPSTQMTLN 1593
             K++ K   + +H     K  + ++LL+ KY++SL +PGEAVGV+  QS+GEPSTQMTLN
Sbjct: 1310 TKFLSKDKGRCRH---DIKEDELMNLLKAKYLASLVDPGEAVGVILAQSLGEPSTQMTLN 1366

Query: 1594 TFHFAGRGEMNVTLGIPRLREILMAASKNILTPVMTCRVKDGKTREDAERLAGKFRRIRF 1773
            TFHFAGR ++NVTLG+PR++EILM AS NI TPVM C + +  T +DAERLA K R +R 
Sbjct: 1367 TFHFAGRSDVNVTLGMPRIQEILMKASANIATPVMMCPLLEDVTWDDAERLAAKLRGVRL 1426

Query: 1774 ADLIETMDVGVVPFAVKAGVMQNTYKLKIKLYSPENYPSHSGISLEKCKSIFEEVFSKEM 1953
             D++E ++V  VPF    G + + YKL+IKL+ PE YP  S +++++C++    VF   M
Sbjct: 1427 VDIVEGIEVCTVPFYNNNGYVSSLYKLQIKLFPPERYPPQSELTVDECQTALRTVFVDSM 1486



 Score =  171 bits (432), Expect = 2e-39
 Identities = 97/208 (46%), Positives = 135/208 (64%), Gaps = 5/208 (2%)
 Frame = +1

Query: 2422 TVSVTS-GRTLTWEYSVMENS-HILLAPIAEKVANKVYVQSVTN--IDKCAVIEITEKKD 2589
            TV V S G      Y ++ N  HILL+ IA+K    ++V+   N  ID+C V+   +K D
Sbjct: 1655 TVHVESTGLNFEVHYLLLHNEPHILLSQIAQKTLRSLFVKGSHNNKIDQCKVVWPEKKGD 1714

Query: 2590 NPPIPALQTNGINFEAFWKLDNELDINRLMTNDINKVLEVYGVEAACATIVLEVQNVFDS 2769
                  L+T G+NF+ FW L + LDI ++ +NDI+ +L  YGVEAA ATI+ EV+ VF+ 
Sbjct: 1715 ---FRGLKTAGVNFDVFWGLQDYLDICKVASNDIHAILRTYGVEAARATIIKEVKAVFEP 1771

Query: 2770 YGITVDRRHLSLIADFMTFNGGYRPLNRIGI-DSSTSPFLKISFETATKFLVDSCLQGET 2946
            +GI V+RRHLSL+A+FMT  G YR ++ +G+    TSPF K++FE AT+F+ ++   GE 
Sbjct: 1772 FGINVNRRHLSLVAEFMTSGGDYRAMSSMGMAQFCTSPFGKMTFEQATRFITEAAFYGEA 1831

Query: 2947 DYLASPSARIVLGQVAKMGTGCFDILQN 3030
            D L  PSA I LG+ AK GTGCF +LQN
Sbjct: 1832 DNLNGPSATISLGKPAKTGTGCFGLLQN 1859


>gb|EOY09357.1| Nuclear RNA polymerase A1 isoform 3 [Theobroma cacao]
          Length = 1400

 Score =  640 bits (1652), Expect = 0.0
 Identities = 348/682 (51%), Positives = 448/682 (65%), Gaps = 33/682 (4%)
 Frame = +1

Query: 7    PTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVAI 186
            P++G+PIR LIQDHIVSA LLTKRDTFLS++E+  L+YS+ +              KV +
Sbjct: 346  PSNGEPIRALIQDHIVSAVLLTKRDTFLSRDEFNQLLYSSGVSSLAQNSFSGKPGQKVFV 405

Query: 187  CKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWG----- 351
               +   + + PA+ KP PLWTGKQVI+++L +ITRG  PF++ K  ++P  ++      
Sbjct: 406  STSEEGMLPIIPAILKPKPLWTGKQVISSVLSHITRGRPPFTVGKTAKIPRDFFRNRRNK 465

Query: 352  --------------------------RESWELEVVIQNNELVCGVIDKAQFGKYGLVHVV 453
                                      +E  E +++I  N+LV GVIDKAQF  YGLVH V
Sbjct: 466  NKQSSREENQPKNDGQKAKVAEKNSKKEPDEEKILIYRNDLVRGVIDKAQFADYGLVHTV 525

Query: 454  HELYGADAAGRLLSVFSRLFTCFMQMHGFTCGAVDLLLFPHXXXXXXXXXXXXXXXGDKA 633
             ELYG++ AG LLSVFSRLFT F+QMHGFTCG  DLL+                    +A
Sbjct: 526  QELYGSNTAGILLSVFSRLFTVFLQMHGFTCGVDDLLIMEDKDIERKKQLEDCEKKVTEA 585

Query: 634  HAQFLG-KDAXXXXXXXXXXXXXXXLRSKGESSSARLDRLMSGALNKITSE-VNGSVFPD 807
            H +  G K                 +R  GE++   LDR M   LN+ +S+ V   +  +
Sbjct: 586  HYELFGVKVNSETAPTELQLEIERTIRRDGETALTALDRKMISVLNENSSKGVLTELLSE 645

Query: 808  GLRKPFLKNCLSLMTLTGAKGGMVNFTQISSLLGQQELEGKRVPRMISGKTLPCFSPWDT 987
            GL K   +NC+SLMT +GAKG  VNF QISS LGQQELEGKRVPRM+SGKTLPCF PWD 
Sbjct: 646  GLVKSMGENCISLMTTSGAKGSKVNFQQISSFLGQQELEGKRVPRMVSGKTLPCFHPWDW 705

Query: 988  QPRAGGFISDRFLTGLRPQEYYFHCMAGRDGLVDTAVKTSRSGYLQRCLIKNLECLTVFY 1167
              RAGGFISDRFL+GLRPQEYYFHCMAGR+GLVDTAVKTSRSGYLQRCLIKNLECL + Y
Sbjct: 706  AARAGGFISDRFLSGLRPQEYYFHCMAGREGLVDTAVKTSRSGYLQRCLIKNLECLKISY 765

Query: 1168 DHTVRDSDGSVIQFCYGEDGVDVTKSSCLTGFEILAANQKLLSQKLCKEQFNDFTDRKLA 1347
            DHTVRD+DGS++QF YGEDG+DV ++S +  FE LA NQ ++S+KLC +        K+ 
Sbjct: 766  DHTVRDADGSIVQFIYGEDGIDVHQTSFIAKFEALALNQDMMSEKLCSQLGEPDDSDKI- 824

Query: 1348 RKKSSAAVCDTTDIPEKLKEKAHKYIYKLSEKEKHLWKLRKPKKFLDLLRVKYISSLAEP 1527
                         +P+ L+ KA ++I +  +K +H  +  KPK FL+LL++K++SSLA+P
Sbjct: 825  -------------LPDGLRSKAEQFIREEIKKYQH--QKIKPKDFLNLLKLKFLSSLAQP 869

Query: 1528 GEAVGVVAGQSVGEPSTQMTLNTFHFAGRGEMNVTLGIPRLREILMAASKNILTPVMTCR 1707
            GE VGV+A QSVGEPSTQMTLNTFH AGRGEMNVTLGIPRL+EILM AS +I TPVMTC 
Sbjct: 870  GEPVGVLAAQSVGEPSTQMTLNTFHLAGRGEMNVTLGIPRLQEILMTASIDIRTPVMTCP 929

Query: 1708 VKDGKTREDAERLAGKFRRIRFADLIETMDVGVVPFAVKAGVMQNTYKLKIKLYSPENYP 1887
            +  GKT+EDA  LA K ++I  AD++E+M+V V PFAV  G + + YKLK+ L  P+ Y 
Sbjct: 930  LHKGKTKEDALCLANKMKKITVADILESMEVSVAPFAVDNGDICSIYKLKMMLGKPDKYF 989

Query: 1888 SHSGISLEKCKSIFEEVFSKEM 1953
             +S I+++ C+ I + VF +E+
Sbjct: 990  ENSDITVKDCEHILKVVFLREL 1011



 Score =  192 bits (487), Expect = 1e-45
 Identities = 100/209 (47%), Positives = 137/209 (65%), Gaps = 16/209 (7%)
 Frame = +1

Query: 2461 YSVMENSHILLAPIAEKVANKVYVQSVTNIDKCAVIEITEKK---------------DNP 2595
            + +    HILLA IAEK A KVY+QS   ID+C V + +E +               D  
Sbjct: 1192 FKLKNEPHILLAQIAEKTAKKVYIQSFGKIDQCRVTDCSENQVFYYGEDPKKRKSPSDKE 1251

Query: 2596 PIPALQTNGINFEAFWKLDNELDINRLMTNDINKVLEVYGVEAACATIVLEVQNVFDSYG 2775
             I AL T G++F AFWK+++ +D+  L +N I+ +L  YGVEAA  TI+ E+ +VF SYG
Sbjct: 1252 KIQALHTTGVDFGAFWKMEDHIDVRYLYSNSIHAMLNTYGVEAARETIIREISHVFTSYG 1311

Query: 2776 ITVDRRHLSLIADFMTFNGGYRPLNRI-GIDSSTSPFLKISFETATKFLVDSCLQGETDY 2952
            I V+ RHL+LIADFMT +G YRP++R+ GI  S SPF K+SFETA+KF+V++   G  D 
Sbjct: 1312 IAVNIRHLTLIADFMTHSGRYRPMSRLGGIAESISPFSKMSFETASKFIVEAAKHGLVDN 1371

Query: 2953 LASPSARIVLGQVAKMGTGCFDILQNLEV 3039
            L +PS+RI LG   KMGTG FD++Q +E+
Sbjct: 1372 LETPSSRICLGLPVKMGTGSFDLMQKVEI 1400


>gb|EOY09355.1| Nuclear RNA polymerase A1, putative isoform 1 [Theobroma cacao]
          Length = 1665

 Score =  640 bits (1652), Expect = 0.0
 Identities = 348/682 (51%), Positives = 448/682 (65%), Gaps = 33/682 (4%)
 Frame = +1

Query: 7    PTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVAI 186
            P++G+PIR LIQDHIVSA LLTKRDTFLS++E+  L+YS+ +              KV +
Sbjct: 638  PSNGEPIRALIQDHIVSAVLLTKRDTFLSRDEFNQLLYSSGVSSLAQNSFSGKPGQKVFV 697

Query: 187  CKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWG----- 351
               +   + + PA+ KP PLWTGKQVI+++L +ITRG  PF++ K  ++P  ++      
Sbjct: 698  STSEEGMLPIIPAILKPKPLWTGKQVISSVLSHITRGRPPFTVGKTAKIPRDFFRNRRNK 757

Query: 352  --------------------------RESWELEVVIQNNELVCGVIDKAQFGKYGLVHVV 453
                                      +E  E +++I  N+LV GVIDKAQF  YGLVH V
Sbjct: 758  NKQSSREENQPKNDGQKAKVAEKNSKKEPDEEKILIYRNDLVRGVIDKAQFADYGLVHTV 817

Query: 454  HELYGADAAGRLLSVFSRLFTCFMQMHGFTCGAVDLLLFPHXXXXXXXXXXXXXXXGDKA 633
             ELYG++ AG LLSVFSRLFT F+QMHGFTCG  DLL+                    +A
Sbjct: 818  QELYGSNTAGILLSVFSRLFTVFLQMHGFTCGVDDLLIMEDKDIERKKQLEDCEKKVTEA 877

Query: 634  HAQFLG-KDAXXXXXXXXXXXXXXXLRSKGESSSARLDRLMSGALNKITSE-VNGSVFPD 807
            H +  G K                 +R  GE++   LDR M   LN+ +S+ V   +  +
Sbjct: 878  HYELFGVKVNSETAPTELQLEIERTIRRDGETALTALDRKMISVLNENSSKGVLTELLSE 937

Query: 808  GLRKPFLKNCLSLMTLTGAKGGMVNFTQISSLLGQQELEGKRVPRMISGKTLPCFSPWDT 987
            GL K   +NC+SLMT +GAKG  VNF QISS LGQQELEGKRVPRM+SGKTLPCF PWD 
Sbjct: 938  GLVKSMGENCISLMTTSGAKGSKVNFQQISSFLGQQELEGKRVPRMVSGKTLPCFHPWDW 997

Query: 988  QPRAGGFISDRFLTGLRPQEYYFHCMAGRDGLVDTAVKTSRSGYLQRCLIKNLECLTVFY 1167
              RAGGFISDRFL+GLRPQEYYFHCMAGR+GLVDTAVKTSRSGYLQRCLIKNLECL + Y
Sbjct: 998  AARAGGFISDRFLSGLRPQEYYFHCMAGREGLVDTAVKTSRSGYLQRCLIKNLECLKISY 1057

Query: 1168 DHTVRDSDGSVIQFCYGEDGVDVTKSSCLTGFEILAANQKLLSQKLCKEQFNDFTDRKLA 1347
            DHTVRD+DGS++QF YGEDG+DV ++S +  FE LA NQ ++S+KLC +        K+ 
Sbjct: 1058 DHTVRDADGSIVQFIYGEDGIDVHQTSFIAKFEALALNQDMMSEKLCSQLGEPDDSDKI- 1116

Query: 1348 RKKSSAAVCDTTDIPEKLKEKAHKYIYKLSEKEKHLWKLRKPKKFLDLLRVKYISSLAEP 1527
                         +P+ L+ KA ++I +  +K +H  +  KPK FL+LL++K++SSLA+P
Sbjct: 1117 -------------LPDGLRSKAEQFIREEIKKYQH--QKIKPKDFLNLLKLKFLSSLAQP 1161

Query: 1528 GEAVGVVAGQSVGEPSTQMTLNTFHFAGRGEMNVTLGIPRLREILMAASKNILTPVMTCR 1707
            GE VGV+A QSVGEPSTQMTLNTFH AGRGEMNVTLGIPRL+EILM AS +I TPVMTC 
Sbjct: 1162 GEPVGVLAAQSVGEPSTQMTLNTFHLAGRGEMNVTLGIPRLQEILMTASIDIRTPVMTCP 1221

Query: 1708 VKDGKTREDAERLAGKFRRIRFADLIETMDVGVVPFAVKAGVMQNTYKLKIKLYSPENYP 1887
            +  GKT+EDA  LA K ++I  AD++E+M+V V PFAV  G + + YKLK+ L  P+ Y 
Sbjct: 1222 LHKGKTKEDALCLANKMKKITVADILESMEVSVAPFAVDNGDICSIYKLKMMLGKPDKYF 1281

Query: 1888 SHSGISLEKCKSIFEEVFSKEM 1953
             +S I+++ C+ I + VF +E+
Sbjct: 1282 ENSDITVKDCEHILKVVFLREL 1303



 Score =  192 bits (487), Expect = 1e-45
 Identities = 100/209 (47%), Positives = 137/209 (65%), Gaps = 16/209 (7%)
 Frame = +1

Query: 2461 YSVMENSHILLAPIAEKVANKVYVQSVTNIDKCAVIEITEKK---------------DNP 2595
            + +    HILLA IAEK A KVY+QS   ID+C V + +E +               D  
Sbjct: 1457 FKLKNEPHILLAQIAEKTAKKVYIQSFGKIDQCRVTDCSENQVFYYGEDPKKRKSPSDKE 1516

Query: 2596 PIPALQTNGINFEAFWKLDNELDINRLMTNDINKVLEVYGVEAACATIVLEVQNVFDSYG 2775
             I AL T G++F AFWK+++ +D+  L +N I+ +L  YGVEAA  TI+ E+ +VF SYG
Sbjct: 1517 KIQALHTTGVDFGAFWKMEDHIDVRYLYSNSIHAMLNTYGVEAARETIIREISHVFTSYG 1576

Query: 2776 ITVDRRHLSLIADFMTFNGGYRPLNRI-GIDSSTSPFLKISFETATKFLVDSCLQGETDY 2952
            I V+ RHL+LIADFMT +G YRP++R+ GI  S SPF K+SFETA+KF+V++   G  D 
Sbjct: 1577 IAVNIRHLTLIADFMTHSGRYRPMSRLGGIAESISPFSKMSFETASKFIVEAAKHGLVDN 1636

Query: 2953 LASPSARIVLGQVAKMGTGCFDILQNLEV 3039
            L +PS+RI LG   KMGTG FD++Q +E+
Sbjct: 1637 LETPSSRICLGLPVKMGTGSFDLMQKVEI 1665


>gb|EOY09358.1| Nuclear RNA polymerase A1 isoform 4 [Theobroma cacao]
          Length = 1397

 Score =  640 bits (1651), Expect = e-180
 Identities = 347/681 (50%), Positives = 447/681 (65%), Gaps = 32/681 (4%)
 Frame = +1

Query: 7    PTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVAI 186
            P++G+PIR LIQDHIVSA LLTKRDTFLS++E+  L+YS+ +              KV +
Sbjct: 346  PSNGEPIRALIQDHIVSAVLLTKRDTFLSRDEFNQLLYSSGVSSLAQNSFSGKPGQKVFV 405

Query: 187  CKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWG----- 351
               +   + + PA+ KP PLWTGKQVI+++L +ITRG  PF++ K  ++P  ++      
Sbjct: 406  STSEEGMLPIIPAILKPKPLWTGKQVISSVLSHITRGRPPFTVGKTAKIPRDFFRNRRNK 465

Query: 352  --------------------------RESWELEVVIQNNELVCGVIDKAQFGKYGLVHVV 453
                                      +E  E +++I  N+LV GVIDKAQF  YGLVH V
Sbjct: 466  NKQSSREENQPKNDGQKAKVAEKNSKKEPDEEKILIYRNDLVRGVIDKAQFADYGLVHTV 525

Query: 454  HELYGADAAGRLLSVFSRLFTCFMQMHGFTCGAVDLLLFPHXXXXXXXXXXXXXXXGDKA 633
             ELYG++ AG LLSVFSRLFT F+QMHGFTCG  DLL+                    +A
Sbjct: 526  QELYGSNTAGILLSVFSRLFTVFLQMHGFTCGVDDLLIMEDKDIERKKQLEDCEKKVTEA 585

Query: 634  HAQFLGKDAXXXXXXXXXXXXXXXLRSKGESSSARLDRLMSGALNKITSE-VNGSVFPDG 810
            H +  G                  +R  GE++   LDR M   LN+ +S+ V   +  +G
Sbjct: 586  HYELFG--VKVNSETELQLEIERTIRRDGETALTALDRKMISVLNENSSKGVLTELLSEG 643

Query: 811  LRKPFLKNCLSLMTLTGAKGGMVNFTQISSLLGQQELEGKRVPRMISGKTLPCFSPWDTQ 990
            L K   +NC+SLMT +GAKG  VNF QISS LGQQELEGKRVPRM+SGKTLPCF PWD  
Sbjct: 644  LVKSMGENCISLMTTSGAKGSKVNFQQISSFLGQQELEGKRVPRMVSGKTLPCFHPWDWA 703

Query: 991  PRAGGFISDRFLTGLRPQEYYFHCMAGRDGLVDTAVKTSRSGYLQRCLIKNLECLTVFYD 1170
             RAGGFISDRFL+GLRPQEYYFHCMAGR+GLVDTAVKTSRSGYLQRCLIKNLECL + YD
Sbjct: 704  ARAGGFISDRFLSGLRPQEYYFHCMAGREGLVDTAVKTSRSGYLQRCLIKNLECLKISYD 763

Query: 1171 HTVRDSDGSVIQFCYGEDGVDVTKSSCLTGFEILAANQKLLSQKLCKEQFNDFTDRKLAR 1350
            HTVRD+DGS++QF YGEDG+DV ++S +  FE LA NQ ++S+KLC +        K+  
Sbjct: 764  HTVRDADGSIVQFIYGEDGIDVHQTSFIAKFEALALNQDMMSEKLCSQLGEPDDSDKI-- 821

Query: 1351 KKSSAAVCDTTDIPEKLKEKAHKYIYKLSEKEKHLWKLRKPKKFLDLLRVKYISSLAEPG 1530
                        +P+ L+ KA ++I +  +K +H  +  KPK FL+LL++K++SSLA+PG
Sbjct: 822  ------------LPDGLRSKAEQFIREEIKKYQH--QKIKPKDFLNLLKLKFLSSLAQPG 867

Query: 1531 EAVGVVAGQSVGEPSTQMTLNTFHFAGRGEMNVTLGIPRLREILMAASKNILTPVMTCRV 1710
            E VGV+A QSVGEPSTQMTLNTFH AGRGEMNVTLGIPRL+EILM AS +I TPVMTC +
Sbjct: 868  EPVGVLAAQSVGEPSTQMTLNTFHLAGRGEMNVTLGIPRLQEILMTASIDIRTPVMTCPL 927

Query: 1711 KDGKTREDAERLAGKFRRIRFADLIETMDVGVVPFAVKAGVMQNTYKLKIKLYSPENYPS 1890
              GKT+EDA  LA K ++I  AD++E+M+V V PFAV  G + + YKLK+ L  P+ Y  
Sbjct: 928  HKGKTKEDALCLANKMKKITVADILESMEVSVAPFAVDNGDICSIYKLKMMLGKPDKYFE 987

Query: 1891 HSGISLEKCKSIFEEVFSKEM 1953
            +S I+++ C+ I + VF +E+
Sbjct: 988  NSDITVKDCEHILKVVFLREL 1008



 Score =  192 bits (487), Expect = 1e-45
 Identities = 100/209 (47%), Positives = 137/209 (65%), Gaps = 16/209 (7%)
 Frame = +1

Query: 2461 YSVMENSHILLAPIAEKVANKVYVQSVTNIDKCAVIEITEKK---------------DNP 2595
            + +    HILLA IAEK A KVY+QS   ID+C V + +E +               D  
Sbjct: 1189 FKLKNEPHILLAQIAEKTAKKVYIQSFGKIDQCRVTDCSENQVFYYGEDPKKRKSPSDKE 1248

Query: 2596 PIPALQTNGINFEAFWKLDNELDINRLMTNDINKVLEVYGVEAACATIVLEVQNVFDSYG 2775
             I AL T G++F AFWK+++ +D+  L +N I+ +L  YGVEAA  TI+ E+ +VF SYG
Sbjct: 1249 KIQALHTTGVDFGAFWKMEDHIDVRYLYSNSIHAMLNTYGVEAARETIIREISHVFTSYG 1308

Query: 2776 ITVDRRHLSLIADFMTFNGGYRPLNRI-GIDSSTSPFLKISFETATKFLVDSCLQGETDY 2952
            I V+ RHL+LIADFMT +G YRP++R+ GI  S SPF K+SFETA+KF+V++   G  D 
Sbjct: 1309 IAVNIRHLTLIADFMTHSGRYRPMSRLGGIAESISPFSKMSFETASKFIVEAAKHGLVDN 1368

Query: 2953 LASPSARIVLGQVAKMGTGCFDILQNLEV 3039
            L +PS+RI LG   KMGTG FD++Q +E+
Sbjct: 1369 LETPSSRICLGLPVKMGTGSFDLMQKVEI 1397


>gb|EOY09356.1| Nuclear RNA polymerase A1, putative isoform 2 [Theobroma cacao]
          Length = 1689

 Score =  640 bits (1651), Expect = e-180
 Identities = 347/681 (50%), Positives = 447/681 (65%), Gaps = 32/681 (4%)
 Frame = +1

Query: 7    PTSGDPIRGLIQDHIVSATLLTKRDTFLSKEEYQNLVYSACIXXXXXXXXXXXXQPKVAI 186
            P++G+PIR LIQDHIVSA LLTKRDTFLS++E+  L+YS+ +              KV +
Sbjct: 638  PSNGEPIRALIQDHIVSAVLLTKRDTFLSRDEFNQLLYSSGVSSLAQNSFSGKPGQKVFV 697

Query: 187  CKEDGLFVSLPPAVWKPVPLWTGKQVITTILDYITRGSLPFSMKKLGRVPAIYWG----- 351
               +   + + PA+ KP PLWTGKQVI+++L +ITRG  PF++ K  ++P  ++      
Sbjct: 698  STSEEGMLPIIPAILKPKPLWTGKQVISSVLSHITRGRPPFTVGKTAKIPRDFFRNRRNK 757

Query: 352  --------------------------RESWELEVVIQNNELVCGVIDKAQFGKYGLVHVV 453
                                      +E  E +++I  N+LV GVIDKAQF  YGLVH V
Sbjct: 758  NKQSSREENQPKNDGQKAKVAEKNSKKEPDEEKILIYRNDLVRGVIDKAQFADYGLVHTV 817

Query: 454  HELYGADAAGRLLSVFSRLFTCFMQMHGFTCGAVDLLLFPHXXXXXXXXXXXXXXXGDKA 633
             ELYG++ AG LLSVFSRLFT F+QMHGFTCG  DLL+                    +A
Sbjct: 818  QELYGSNTAGILLSVFSRLFTVFLQMHGFTCGVDDLLIMEDKDIERKKQLEDCEKKVTEA 877

Query: 634  HAQFLGKDAXXXXXXXXXXXXXXXLRSKGESSSARLDRLMSGALNKITSE-VNGSVFPDG 810
            H +  G                  +R  GE++   LDR M   LN+ +S+ V   +  +G
Sbjct: 878  HYELFG--VKVNSETELQLEIERTIRRDGETALTALDRKMISVLNENSSKGVLTELLSEG 935

Query: 811  LRKPFLKNCLSLMTLTGAKGGMVNFTQISSLLGQQELEGKRVPRMISGKTLPCFSPWDTQ 990
            L K   +NC+SLMT +GAKG  VNF QISS LGQQELEGKRVPRM+SGKTLPCF PWD  
Sbjct: 936  LVKSMGENCISLMTTSGAKGSKVNFQQISSFLGQQELEGKRVPRMVSGKTLPCFHPWDWA 995

Query: 991  PRAGGFISDRFLTGLRPQEYYFHCMAGRDGLVDTAVKTSRSGYLQRCLIKNLECLTVFYD 1170
             RAGGFISDRFL+GLRPQEYYFHCMAGR+GLVDTAVKTSRSGYLQRCLIKNLECL + YD
Sbjct: 996  ARAGGFISDRFLSGLRPQEYYFHCMAGREGLVDTAVKTSRSGYLQRCLIKNLECLKISYD 1055

Query: 1171 HTVRDSDGSVIQFCYGEDGVDVTKSSCLTGFEILAANQKLLSQKLCKEQFNDFTDRKLAR 1350
            HTVRD+DGS++QF YGEDG+DV ++S +  FE LA NQ ++S+KLC +        K+  
Sbjct: 1056 HTVRDADGSIVQFIYGEDGIDVHQTSFIAKFEALALNQDMMSEKLCSQLGEPDDSDKI-- 1113

Query: 1351 KKSSAAVCDTTDIPEKLKEKAHKYIYKLSEKEKHLWKLRKPKKFLDLLRVKYISSLAEPG 1530
                        +P+ L+ KA ++I +  +K +H  +  KPK FL+LL++K++SSLA+PG
Sbjct: 1114 ------------LPDGLRSKAEQFIREEIKKYQH--QKIKPKDFLNLLKLKFLSSLAQPG 1159

Query: 1531 EAVGVVAGQSVGEPSTQMTLNTFHFAGRGEMNVTLGIPRLREILMAASKNILTPVMTCRV 1710
            E VGV+A QSVGEPSTQMTLNTFH AGRGEMNVTLGIPRL+EILM AS +I TPVMTC +
Sbjct: 1160 EPVGVLAAQSVGEPSTQMTLNTFHLAGRGEMNVTLGIPRLQEILMTASIDIRTPVMTCPL 1219

Query: 1711 KDGKTREDAERLAGKFRRIRFADLIETMDVGVVPFAVKAGVMQNTYKLKIKLYSPENYPS 1890
              GKT+EDA  LA K ++I  AD++E+M+V V PFAV  G + + YKLK+ L  P+ Y  
Sbjct: 1220 HKGKTKEDALCLANKMKKITVADILESMEVSVAPFAVDNGDICSIYKLKMMLGKPDKYFE 1279

Query: 1891 HSGISLEKCKSIFEEVFSKEM 1953
            +S I+++ C+ I + VF +E+
Sbjct: 1280 NSDITVKDCEHILKVVFLREL 1300



 Score =  192 bits (487), Expect = 1e-45
 Identities = 100/209 (47%), Positives = 137/209 (65%), Gaps = 16/209 (7%)
 Frame = +1

Query: 2461 YSVMENSHILLAPIAEKVANKVYVQSVTNIDKCAVIEITEKK---------------DNP 2595
            + +    HILLA IAEK A KVY+QS   ID+C V + +E +               D  
Sbjct: 1481 FKLKNEPHILLAQIAEKTAKKVYIQSFGKIDQCRVTDCSENQVFYYGEDPKKRKSPSDKE 1540

Query: 2596 PIPALQTNGINFEAFWKLDNELDINRLMTNDINKVLEVYGVEAACATIVLEVQNVFDSYG 2775
             I AL T G++F AFWK+++ +D+  L +N I+ +L  YGVEAA  TI+ E+ +VF SYG
Sbjct: 1541 KIQALHTTGVDFGAFWKMEDHIDVRYLYSNSIHAMLNTYGVEAARETIIREISHVFTSYG 1600

Query: 2776 ITVDRRHLSLIADFMTFNGGYRPLNRI-GIDSSTSPFLKISFETATKFLVDSCLQGETDY 2952
            I V+ RHL+LIADFMT +G YRP++R+ GI  S SPF K+SFETA+KF+V++   G  D 
Sbjct: 1601 IAVNIRHLTLIADFMTHSGRYRPMSRLGGIAESISPFSKMSFETASKFIVEAAKHGLVDN 1660

Query: 2953 LASPSARIVLGQVAKMGTGCFDILQNLEV 3039
            L +PS+RI LG   KMGTG FD++Q +E+
Sbjct: 1661 LETPSSRICLGLPVKMGTGSFDLMQKVEI 1689