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= Coptis24_contig00008028
         (3958 letters)

Database: ./nr 
           23,641,837 sequences; 8,123,359,852 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|XP_002275898.2| PREDICTED: LOW QUALITY PROTEIN: DNA-directed...   892   0.0  
emb|CBI34757.3| unnamed protein product [Vitis vinifera]              750   0.0  
ref|XP_003516687.1| PREDICTED: DNA-directed RNA polymerase D sub...   779   0.0  
gb|ACL30982.1| mutant DNA dependent RNA polymerase D largest sub...   726   0.0  
ref|NP_001182824.1| DNA dependent RNA polymerase D largest subun...   726   0.0  

>ref|XP_002275898.2| PREDICTED: LOW QUALITY PROTEIN: DNA-directed RNA polymerase D subunit
            1-like [Vitis vinifera]
          Length = 1560

 Score =  892 bits (2305), Expect(2) = 0.0
 Identities = 477/908 (52%), Positives = 627/908 (69%), Gaps = 69/908 (7%)
 Frame = +1

Query: 4    ASELALRVRDFLSVSKLYTEKSSNTDV---LSGLKWVKDVVLAKRTDNSFRMVVVGDPNV 174
            A+EL+ RV D L  SKL +EKS++ D    +SGLKW+K+V+L KRT++SFRM+VVGDP +
Sbjct: 307  ANELSCRVLDCLKTSKLRSEKSTSKDSASKMSGLKWIKEVLLGKRTNHSFRMIVVGDPKL 366

Query: 175  KLGEIGMPREICQKLIFPETLNEQNWEKLHDCCRLSILERGQFRARRKDDTIVLRNEDDL 354
            +L EIG+P  I ++L+  E LN  NWEK+ + C L +LE+GQ   RRK     +R  +D 
Sbjct: 367  RLSEIGIPCHIAEELLISEHLNSWNWEKVTNGCNLRLLEKGQTYVRRKGTLAPVRRMNDF 426

Query: 355  KIGDIVYRHLDEGDLLLLNRPPSIHQHSLIALSVRVLPMDSVVLLNPICCSPFRGDFDGD 534
            + GDI+YR L +GD++L+NRPPSIHQHS+IALSV+VLP++SVV +NP+CCSPFRGDFDGD
Sbjct: 427  QAGDIIYRPLTDGDIVLINRPPSIHQHSVIALSVKVLPLNSVVSINPLCCSPFRGDFDGD 486

Query: 535  CFHGYIPQSIKSRVELQELVCIDRQLVNGQNGRNLISLCHDSLSAAHLLREKGEFLNKVE 714
            C HGYIPQS+ SRVEL ELV ++RQL+N Q+GRNL+SL  DSLSAAHL+ E G  LN  +
Sbjct: 487  CLHGYIPQSVDSRVELSELVALNRQLINRQSGRNLLSLSQDSLSAAHLVMEDGVLLNLFQ 546

Query: 715  MQQLGMLCSRQLPYPAIVRATD-HNPIWTGNQLLSMLLPVSFDYS-SLSGVHISNGEIIS 888
            MQQL M C  QL  PAI++A      +WTG QL SMLLP  F+Y   L+GV IS+GE+IS
Sbjct: 547  MQQLEMFCPYQLQSPAIIKAPLLDTQVWTGKQLFSMLLPPGFNYVFPLNGVRISDGELIS 606

Query: 889  AP-GSSWLQDTDGNLFISLVKLYGSKAVDIIFTIQEVLLEWISMRGFSVSLSDLFVSCDS 1065
            +  GS+WL+D DGNLF SLVK    KA+D ++  QEVL EW+SMRG SVSLSD+++S DS
Sbjct: 607  SSDGSAWLRDIDGNLFSSLVKDCQGKALDFLYAAQEVLCEWLSMRGLSVSLSDIYLSSDS 666

Query: 1066 YTWDKMTEEVRSGLQEAKK-------------------GLKN------------------ 1134
             +   M +EV  GL  A++                   G  N                  
Sbjct: 667  ISRKNMIDEVFCGLLVAEQTCHFKQLLVDSSQNFLIGSGENNQNGVVPDVQSLWYERQGS 726

Query: 1135 -VLSKQSVCDFKGVFRDLQSLIYRYSSKDNSMLAMVKAGSKGSLPKLAQQCLTLGLQYSN 1311
              L + SVC FK  FRD+Q+L+Y+Y++KDNS+LAM+KAGSKG+L KL QQ L LGLQ+S 
Sbjct: 727  AALCQSSVCAFKQKFRDIQNLVYQYANKDNSLLAMLKAGSKGNLLKLVQQGLCLGLQHSL 786

Query: 1312 VPLSFSIP-------WD------------SSLSSSCHVAGVVESSFLAGLSPSECFLHSI 1434
            VPLSF IP       W+            S  + S     VVE+SFL GL+P ECF+HS+
Sbjct: 787  VPLSFKIPHQLSCAAWNKQKVPGLIQNDTSEYAESYIPYAVVENSFLMGLNPLECFVHSV 846

Query: 1435 SCRDSSFSENADVPGTLNRKLMFSMRDLYMAYDGTVRYSYGNQVVQFSYGV---SEDSSV 1605
            + RDSSFS+NAD+PGTL R+LMF MRDLY+AYDGTVR +YGNQ+VQFSY +   S  S  
Sbjct: 847  TSRDSSFSDNADLPGTLTRRLMFFMRDLYIAYDGTVRNAYGNQLVQFSYNIEHTSTPSDG 906

Query: 1606 LTSGNSAHQLG-DPVGSLAACSISEAAYSALEKPISTFESSPLLNLKMLLDSSYKKTTVG 1782
            +     A+ +G  PVGS++AC+ISEAAYSAL++PIS  E SPLLNLK +L+   +K+T  
Sbjct: 907  INEDTCAYDMGGQPVGSISACAISEAAYSALDQPISLLEPSPLLNLKRVLECGLRKSTAD 966

Query: 1783 QTVSLFLSKKLERWLYGPEYGALTVRSHLERVLFSDIVSSVMIIFSHQRSCRPHTSPWVC 1962
            +TVSLFLSKKLE+  +G EYGAL V++HLE++LFSDIVS+VMI+FS Q   + H SPWVC
Sbjct: 967  RTVSLFLSKKLEKRKHGFEYGALEVKNHLEKLLFSDIVSTVMIVFSPQNGSKTHFSPWVC 1026

Query: 1963 HFHLHQGKMKKIGLDVQSIINALHQECDSTRQTLKVELPKLHILTRICSATNAQNEKDED 2142
            HFH+ +   KK  L   SII+AL+ +C+S R   K+ LP L I ++ C   + + E  + 
Sbjct: 1027 HFHVCEEIAKKRSLKPHSIIDALYMKCNSARAESKINLPDLQITSKDC-FVDMEKEDSDC 1085

Query: 2143 ICITVEAEVSRNSLLVMDTFRHTVIPFLLGTVIKGFMEFKKVDILWSESNISD--KASRG 2316
             CITV    S+ S + +DT R  VIPFLLG V+KG ++ KKVDILW+++  SD  K+S G
Sbjct: 1086 FCITVSIVNSKKSCIQLDTVRDLVIPFLLGAVVKGLLDVKKVDILWNDNPDSDVLKSSSG 1145

Query: 2317 ELYMKVHLYEHCKSGTGWSLVVNKCLRIMDLIDWNRSHPDSMHDLFCTYGIDCSWEYFLR 2496
             LY++V++   C     W ++++ CL+IMD+IDW RSHPD++HD+F  YGID  W+YFL 
Sbjct: 1146 RLYLRVYVSGDCGKKNFWGVLMDACLQIMDMIDWERSHPDNIHDIFVVYGIDAGWKYFLN 1205

Query: 2497 NLKVAVSD 2520
            +LK A+SD
Sbjct: 1206 SLKSAISD 1213



 Score =  219 bits (558), Expect(2) = 0.0
 Identities = 118/256 (46%), Positives = 151/256 (58%), Gaps = 11/256 (4%)
 Frame = +2

Query: 2519 IGKSILPEHLLLVADCLTVTGQFIGLNAKGIAKQRDLVSVPSPFTQACFSSPGPCFIKAA 2698
            IGK++LPEHLLLVA CL+ TG+F+GLNAKG+A+Q++L S+ SPF Q CFSSPG CFIKA 
Sbjct: 1214 IGKTVLPEHLLLVASCLSATGEFVGLNAKGMARQKELTSISSPFMQGCFSSPGSCFIKAG 1273

Query: 2699 KYGAEDGLLGVLNAAAWGKEVPLGTGGQFDIIYSGKVHEFSETLDIYNTLSGHLCPERQN 2878
            K    D L G L+A AWGK   +G+GG FDI+YS K HE +   DIY  L        QN
Sbjct: 1274 KRAVADNLHGSLDALAWGKIPSVGSGGHFDILYSAKGHELARPEDIYKLLGSQTSCHEQN 1333

Query: 2879 VKISVPPTTQKWMSGKGDTDVLQTFDSFIGKGPNNLK-----------GLSDLVMLHKNL 3025
            +K+ VP T  +  +  G   V    DS   KG  +L+            L+D+  L + L
Sbjct: 1334 LKVKVPITCYQTTTKCGAQLVYANGDS-ASKGCKSLEKISKSVLRSFLSLNDIQKLSRRL 1392

Query: 3026 QEILHRYPVNDFLNEKDKSILTSALSYHPRSXXXXXXXXXXXXXXXHQKYKYSHCFILVR 3205
            + IL +YP+N  L+E DK+ L  AL +HPR                H KY  + CF LVR
Sbjct: 1393 KFILQKYPINHQLSEIDKTTLMMALYFHPRRDEKIGPGAQNIKVRYHSKYHNTRCFSLVR 1452

Query: 3206 KDGSEDDFSYRKCVRG 3253
             DG+E+DFSY KCV G
Sbjct: 1453 TDGTEEDFSYHKCVHG 1468


>emb|CBI34757.3| unnamed protein product [Vitis vinifera]
          Length = 1359

 Score =  750 bits (1937), Expect(2) = 0.0
 Identities = 410/836 (49%), Positives = 550/836 (65%), Gaps = 24/836 (2%)
 Frame = +1

Query: 85   LSGLKWVKDVVLAKRTDNSFRMVVVGDPNVKLGEIGMPREICQKLIFPETLNEQNWEKLH 264
            +SGLKW+K+V+L KRT++SFRM+VVGDP ++L EIG+P  I ++L+  E LN  NWEK+ 
Sbjct: 280  MSGLKWIKEVLLGKRTNHSFRMIVVGDPKLRLSEIGIPCHIAEELLISEHLNSWNWEKVT 339

Query: 265  DCCRLSILERGQFRARRKDDTIVLRNEDDLKIGDIVYRHLDEGDLLLLNRPPSIHQHSLI 444
            + C L +LE+GQ   RRK     +R  +D + GDI+YR L +GD++L+NRPPSIHQHS+I
Sbjct: 340  NGCNLRLLEKGQTYVRRKGTLAPVRRMNDFQAGDIIYRPLTDGDIVLINRPPSIHQHSVI 399

Query: 445  ALSVRVLPMDSVVLLNPICCSPFRGDFDGDCFHGYIPQSIKSRVELQELVCIDRQLVNGQ 624
            ALSV+VLP++SVV +NP+CCSPFRGDFDGDC HGYIPQS+ SRVEL ELV ++RQL+N Q
Sbjct: 400  ALSVKVLPLNSVVSINPLCCSPFRGDFDGDCLHGYIPQSVDSRVELSELVALNRQLINRQ 459

Query: 625  NGRNLISLCHDSLSAAHLLREKGEFLNKVEMQQLGMLCSRQLPYPAIVRATDHNPIWTGN 804
            +GRNL+SL  DSLSAAHL+ E G  LN  +MQQL M C  QL  PAI++A   +  W   
Sbjct: 460  SGRNLLSLSQDSLSAAHLVMEDGVLLNLFQMQQLEMFCPYQLQSPAIIKAPLLDTQWLSM 519

Query: 805  QLLSMLLPVSFDYSSLSGVHISNGEIISAPGSSWLQDTDGNLFISLVKLYGSKAVDIIFT 984
            + LS+         SLS +++S+  I                            +D +F 
Sbjct: 520  RGLSV---------SLSDIYLSSDSISR-----------------------KNMIDEVFC 547

Query: 985  IQEVLLEWISMRGFSVSLSDLF-VSCDSYTWDKMTEEVRSGLQEAKKGLKNVLSKQSVCD 1161
               V  +    +   V  S  F +       + +  +V+S L   ++G    L + SVC 
Sbjct: 548  GLLVAEQTCHFKQLLVDSSQNFLIGSGENNQNGVVPDVQS-LWYERQG-SAALCQSSVCA 605

Query: 1162 FKGVFRDLQSLIYRYSSKDNSMLAMVKAGSKGSLPKLAQQCLTLGLQYSNVPLSFSIP-- 1335
            FK  FRD+Q+L+Y+Y++KDNS+LAM+KAGSKG+L KL QQ L LGLQ+S VPLSF IP  
Sbjct: 606  FKQKFRDIQNLVYQYANKDNSLLAMLKAGSKGNLLKLVQQGLCLGLQHSLVPLSFKIPHQ 665

Query: 1336 -----WD------------SSLSSSCHVAGVVESSFLAGLSPSECFLHSISCRDSSFSEN 1464
                 W+            S  + S     VVE+SFL GL+P ECF+HS++ RDSSFS+N
Sbjct: 666  LSCAAWNKQKVPGLIQNDTSEYAESYIPYAVVENSFLMGLNPLECFVHSVTSRDSSFSDN 725

Query: 1465 ADVPGTLNRKLMFSMRDLYMAYDGTVRYSYGNQVVQFSYGV---SEDSSVLTSGNSAHQL 1635
            AD+PGTL R+LMF MRDLY+AYDGTVR +YGNQ+VQFSY +   S  S  +     A+ +
Sbjct: 726  ADLPGTLTRRLMFFMRDLYIAYDGTVRNAYGNQLVQFSYNIEHTSTPSDGINEDTCAYDM 785

Query: 1636 -GDPVGSLAACSISEAAYSALEKPISTFESSPLLNLKMLLDSSYKKTTVGQTVSLFLSKK 1812
             G PVGS++AC+ISEAAYSAL++PIS  E SPLLNLK +L+   +K+T  +TVSLFLSKK
Sbjct: 786  GGQPVGSISACAISEAAYSALDQPISLLEPSPLLNLKRVLECGLRKSTADRTVSLFLSKK 845

Query: 1813 LERWLYGPEYGALTVRSHLERVLFSDIVSSVMIIFSHQRSCRPHTSPWVCHFHLHQGKMK 1992
            LE+  +G EYGAL V++HLE++LFSDIVS+VMI+FS Q   + H SPWVCHFH+ +   K
Sbjct: 846  LEKRKHGFEYGALEVKNHLEKLLFSDIVSTVMIVFSPQNGSKTHFSPWVCHFHVCEEIAK 905

Query: 1993 KIGLDVQSIINALHQECDSTRQTLKVELPKLHILTRICSATNAQNEKDEDICITVEAEVS 2172
            K  L   SII+AL+ +C+S R   K+ LP L I ++ C   + + E  +  CITV    S
Sbjct: 906  KRSLKPHSIIDALYMKCNSARAESKINLPDLQITSKDC-FVDMEKEDSDCFCITVSIVNS 964

Query: 2173 RNSLLVMDTFRHTVIPFLLGTVIKGFMEFKKVDILWSESNISDKASRGELYMKVHLYEHC 2352
            + S + +DT R  VIPFLLG V+KG    K  D+L        K+S G LY++V++   C
Sbjct: 965  KKSCIQLDTVRDLVIPFLLGAVVKGCC-IKNSDVL--------KSSSGRLYLRVYVSGDC 1015

Query: 2353 KSGTGWSLVVNKCLRIMDLIDWNRSHPDSMHDLFCTYGIDCSWEYFLRNLKVAVSD 2520
                 W ++++ CL+IMD+IDW RSHPD++HD+F  YGID  W+YFL +LK A+SD
Sbjct: 1016 GKKNFWGVLMDACLQIMDMIDWERSHPDNIHDIFVVYGIDAGWKYFLNSLKSAISD 1071



 Score =  219 bits (558), Expect(2) = 0.0
 Identities = 118/256 (46%), Positives = 151/256 (58%), Gaps = 11/256 (4%)
 Frame = +2

Query: 2519 IGKSILPEHLLLVADCLTVTGQFIGLNAKGIAKQRDLVSVPSPFTQACFSSPGPCFIKAA 2698
            IGK++LPEHLLLVA CL+ TG+F+GLNAKG+A+Q++L S+ SPF Q CFSSPG CFIKA 
Sbjct: 1072 IGKTVLPEHLLLVASCLSATGEFVGLNAKGMARQKELTSISSPFMQGCFSSPGSCFIKAG 1131

Query: 2699 KYGAEDGLLGVLNAAAWGKEVPLGTGGQFDIIYSGKVHEFSETLDIYNTLSGHLCPERQN 2878
            K    D L G L+A AWGK   +G+GG FDI+YS K HE +   DIY  L        QN
Sbjct: 1132 KRAVADNLHGSLDALAWGKIPSVGSGGHFDILYSAKGHELARPEDIYKLLGSQTSCHEQN 1191

Query: 2879 VKISVPPTTQKWMSGKGDTDVLQTFDSFIGKGPNNLK-----------GLSDLVMLHKNL 3025
            +K+ VP T  +  +  G   V    DS   KG  +L+            L+D+  L + L
Sbjct: 1192 LKVKVPITCYQTTTKCGAQLVYANGDS-ASKGCKSLEKISKSVLRSFLSLNDIQKLSRRL 1250

Query: 3026 QEILHRYPVNDFLNEKDKSILTSALSYHPRSXXXXXXXXXXXXXXXHQKYKYSHCFILVR 3205
            + IL +YP+N  L+E DK+ L  AL +HPR                H KY  + CF LVR
Sbjct: 1251 KFILQKYPINHQLSEIDKTTLMMALYFHPRRDEKIGPGAQNIKVRYHSKYHNTRCFSLVR 1310

Query: 3206 KDGSEDDFSYRKCVRG 3253
             DG+E+DFSY KCV G
Sbjct: 1311 TDGTEEDFSYHKCVHG 1326


>ref|XP_003516687.1| PREDICTED: DNA-directed RNA polymerase D subunit 1-like [Glycine max]
          Length = 1622

 Score =  779 bits (2011), Expect(2) = 0.0
 Identities = 442/929 (47%), Positives = 594/929 (63%), Gaps = 90/929 (9%)
 Frame = +1

Query: 4    ASELALRVRDFLSVSKLYTEKSSNT---DVL-----------SGLKWVKDVVLAKRTDNS 141
            A+EL+ RV D L +SKL  +K+ N+   D+            SGL+W+KDVVL KR D+S
Sbjct: 259  ANELSSRVLDCLRISKLNPDKTPNSIFADIQQRKIGENAFNSSGLRWIKDVVLGKRNDSS 318

Query: 142  FRMVVVGDPNVKLGEIGMPREICQKLIFPETLNEQNWEKLHDCCRLSILERGQFRARRKD 321
            FR VVVGDP+++L EIG+P  I + L   E +N QN EKL  CC L +LE+G+    RK 
Sbjct: 319  FRTVVVGDPDLELSEIGIPCHIAESLQVSEYVNRQNREKLLYCCELHLLEKGKINVCRKG 378

Query: 322  DTIVLRNEDDLKIGDIVYRHLDEGDLLLLNRPPSIHQHSLIALSVRVLPMDSVVLLNPIC 501
              + L  ++DL+IGD  YR L +GD +L+NRPPSIHQHS+I+L+VRVLP+ SVV +NP+C
Sbjct: 379  SIVHLYKKEDLQIGDKFYRPLADGDKVLINRPPSIHQHSMISLTVRVLPISSVVCINPLC 438

Query: 502  CSPFRGDFDGDCFHGYIPQSIKSRVELQELVCIDRQLVNGQNGRNLISLCHDSLSAAHLL 681
            CSP RGDFDGDC HGYIPQS+ +R+EL ELV +DRQL+NGQ+GRNL+SL  DSL+AA+LL
Sbjct: 439  CSPLRGDFDGDCLHGYIPQSVTARIELNELVALDRQLINGQSGRNLLSLSQDSLTAAYLL 498

Query: 682  REKGEFLNKVEMQQLGMLC--SRQLPYPAIVRATDHNP-IWTGNQLLSMLLPVSFDYSSL 852
             E G  LN  +MQQL ML   +++L  PA+V+A   N  +W G QL SMLLP  FDYS  
Sbjct: 499  MEDGVLLNVYQMQQLQMLSISNKRLIPPAVVKAPSSNSSLWNGKQLFSMLLPYDFDYSFP 558

Query: 853  S-GVHISNGEIISAP-GSSWLQDTDGNLFISLVKLYGSKAVDIIFTIQEVLLEWISMRGF 1026
            S GV +S+GE++S+   S WL+D+D N+F SLV+ Y  K ++ ++  Q+VL EW+SM GF
Sbjct: 559  SDGVVVSDGELVSSSEASGWLRDSDYNVFQSLVEHYQGKTLNFLYAAQKVLCEWLSMTGF 618

Query: 1027 SVSLSDLFVSCDSYTWDKMTEEVRSGLQEAKKG--------------------------- 1125
            SVSLSDL++S DSY  + M EE+  GLQ+A++                            
Sbjct: 619  SVSLSDLYLSSDSYARENMIEEIFYGLQDAERACNFKQLLLDYYCDFLSGSLQESENAIT 678

Query: 1126 -----------LKNVLSKQSVCDFKGVFRDLQSLIYRYSSKDNSMLAMVKAGSKGSLPKL 1272
                       +   LS+ SV  F+ VFR++QSL  +Y+ K NS LAM KAGSKG+L KL
Sbjct: 679  VNADRLNYERQISASLSQASVDAFRQVFRNIQSLADKYACKGNSFLAMFKAGSKGNLLKL 738

Query: 1273 AQQCLTLGLQYSNVPLSFSIP------------WDSSLSSSCHVA---------GVVESS 1389
             Q  + LG+Q S V LS+ +P            W  S+  S              VVESS
Sbjct: 739  VQHSMCLGMQNSLVRLSYRLPRHLSCADWNSQKWVDSIQMSSGTLESVQSYIPYAVVESS 798

Query: 1390 FLAGLSPSECFLHSISCRDSSFSENADVPGTLNRKLMFSMRDLYMAYDGTVRYSYGNQVV 1569
            FL GL+P ECF+HS++ RDSSFS++AD+PGTL R+LMF MRDLY AYDGTVR  YGNQ++
Sbjct: 799  FLTGLNPLECFVHSVTNRDSSFSDHADLPGTLTRRLMFFMRDLYDAYDGTVRNLYGNQLI 858

Query: 1570 QFSYGVSEDSSVLTSGNSAHQLGDPVGSLAACSISEAAYSALEKPISTFESSPLLNLKML 1749
            QFSY + EDSS           G+ VG+++AC+ISEAAYSAL +P+S  E+SPLLNLK +
Sbjct: 859  QFSYDIEEDSSCNKGFQQYALGGESVGAISACAISEAAYSALGQPVSLLETSPLLNLKNV 918

Query: 1750 LDSSYKKTTVGQTVSLFLSKKLERWLYGPEYGALTVRSHLERVLFSDIVSSVMIIFS-HQ 1926
            L+   +K    QTVSLFLS+KL +  +G EY AL V+++LER+LFS+IVS VMIIF+ H 
Sbjct: 919  LECGSRKRNGDQTVSLFLSEKLGKQRHGFEYAALEVKNYLERLLFSNIVSKVMIIFTPHD 978

Query: 1927 RSCRPHTSPWVCHFHLHQGKMKKIGLDVQSIINALHQECDSTRQTLKVELPKLHILTRIC 2106
               +   SPWVCHFHL +  + +  L V SII++L+Q   S R+  KV    L I +R C
Sbjct: 979  SRSQEKYSPWVCHFHLDKEIVTRRKLKVHSIIDSLYQRYYSQRKDSKVCFTNLKISSRKC 1038

Query: 2107 SATNAQNEKDE--------DICITVEAEVSRNSLLVMDTFRHTVIPFLLGTVIKGFMEFK 2262
            SA +   E ++        D CI V    +  + + +D+ R  VIPFLLGT I+GF++ K
Sbjct: 1039 SADSMVKEGEDTSIDKEEGDDCIMVTIVENSKNPIQLDSVRDLVIPFLLGTAIQGFLDVK 1098

Query: 2263 KVDILW-SESNISDKAS--RGELYMKVHLYEHCKSGTGWSLVVNKCLRIMDLIDWNRSHP 2433
            KVDILW ++S +++  +   GELY++V L      G  W +++  C +IM +IDW RSH 
Sbjct: 1099 KVDILWNNQSKVTNSRNGFSGELYLRVTLSSEGSRGRFWGVLLKLCHKIMHIIDWTRSHT 1158

Query: 2434 DSMHDLFCTYGIDCSWEYFLRNLKVAVSD 2520
            D+++     YGID  W+YF  +L  A SD
Sbjct: 1159 DNINHFSSAYGIDAGWQYFFNSLACATSD 1187



 Score =  186 bits (472), Expect(2) = 0.0
 Identities = 101/250 (40%), Positives = 146/250 (58%), Gaps = 6/250 (2%)
 Frame = +2

Query: 2522 GKSILPEHLLLVADCLTVTGQFIGLNAKGIAKQRDLVSVPSPFTQACFSSPGPCFIKAAK 2701
            GKSILP+HL LVA+ L+ +G+F+GLNAKG+A QR   SV SPF QACF++PG CFIKAAK
Sbjct: 1189 GKSILPKHLCLVANSLSCSGEFVGLNAKGMALQRKHASVSSPFVQACFANPGSCFIKAAK 1248

Query: 2702 YGAEDGLLGVLNAAAWGKEVPLGTGGQFDIIYSGKVHEFSETLDIYNTLSGHLCPERQNV 2881
             GA D L G L+  AWG  + +GT G FD+IYS K H+ ++++D+Y  L      ++ N 
Sbjct: 1249 SGATDNLQGSLDGLAWGNCLSMGTSGMFDVIYSEKGHQVAKSVDVYELLEASF--DKPNN 1306

Query: 2882 KISVPPTTQKWMSGKGDTDVLQTFDSFIGKGP------NNLKGLSDLVMLHKNLQEILHR 3043
            KI       K+ S K  ++        + +G        N   ++D+  L    + IL++
Sbjct: 1307 KIGT--HLHKYSSDKCGSEFRHKNGYALKEGKQWKTILRNFVTVNDIQKLTFASRCILNK 1364

Query: 3044 YPVNDFLNEKDKSILTSALSYHPRSXXXXXXXXXXXXXXXHQKYKYSHCFILVRKDGSED 3223
            Y +++ L+E D+S +   L++HP                 H KYK S CF ++R DG+ +
Sbjct: 1365 YSIDELLSESDRSTMLRVLNFHPHKSEKFGIGPQDIKVGWHPKYKDSRCFHIIRTDGTVE 1424

Query: 3224 DFSYRKCVRG 3253
            DFSYRKC+ G
Sbjct: 1425 DFSYRKCILG 1434


>gb|ACL30982.1| mutant DNA dependent RNA polymerase D largest subunit rpd1-8 [Zea
            mays]
          Length = 1444

 Score =  726 bits (1873), Expect(2) = 0.0
 Identities = 401/899 (44%), Positives = 562/899 (62%), Gaps = 60/899 (6%)
 Frame = +1

Query: 4    ASELALRVRDFLSVSKLYTEKS---SNTDVLSGLKWVKDVVLAKRTDNSFRMVVVGDPNV 174
            +S ++ RV + L  SKLY++K+   ++TD   G+KW+KDVVL+KR+DN FR ++VGDP +
Sbjct: 292  SSLVSSRVSECLKSSKLYSKKADGETSTDTY-GMKWLKDVVLSKRSDNVFRSIMVGDPKI 350

Query: 175  KLGEIGMPREICQKLIFPETLNEQNWEKLHDCCRLSILERGQFRARRKDDTIVLRNEDDL 354
            KL EIG+P ++   L+  E ++  N++  +  C L +L + +   RR    + LR  D L
Sbjct: 351  KLWEIGIPEDLSSSLVVSEHVSSYNFQSTNLKCNLHLLAKQELFIRRNGKLMFLRKADQL 410

Query: 355  KIGDIVYRHLDEGDLLLLNRPPSIHQHSLIALSVRVLPMDSVVLLNPICCSPFRGDFDGD 534
            +IGDI YR L +GD++L+NRPPS+HQHSLIALS ++LP+ SVV +NP+CC+PF GDFDGD
Sbjct: 411  EIGDIAYRPLQDGDIILINRPPSVHQHSLIALSAKILPIHSVVSINPLCCTPFAGDFDGD 470

Query: 535  CFHGYIPQSIKSRVELQELVCIDRQLVNGQNGRNLISLCHDSLSAAHLLREKGEFLNKVE 714
            C HGYIPQSI+SRVEL+ELV +  QL+N Q+GRNL+SL HDSL+AAHLL     FL K E
Sbjct: 471  CLHGYIPQSIRSRVELEELVSLHNQLLNMQDGRNLVSLTHDSLAAAHLLTSTDVFLKKSE 530

Query: 715  MQQLGMLC-SRQLPYPAIVRATD-HNPIWTGNQLLSMLLPVSFDYSSLSGVHISNGEIIS 888
            +QQL MLC S   P PA++++ +    +WTG QL SMLLP   ++S  + +HI + E+++
Sbjct: 531  LQQLQMLCLSVSTPAPAVIKSMNFQGSLWTGKQLFSMLLPSGMNFSCDTELHIMDSEVLT 590

Query: 889  AP-GSSWLQDTDGNLFISLVKLYGSKAVDIIFTIQEVLLEWISMRGFSVSLSDLFVSCDS 1065
               GSSWLQ+    LF  + K YG KA+D + + QEVL E+++MRG SVSLSDL++  D 
Sbjct: 591  CSLGSSWLQNNTSGLFSVMFKQYGCKALDFLSSAQEVLCEFLTMRGLSVSLSDLYMFSDH 650

Query: 1066 YTWDKMTEEVRSGLQEAKKGLK---------------------NVLSKQSVC-------- 1158
            Y+  K+ E V+  L EA++  +                     +V  +QS C        
Sbjct: 651  YSRRKLAEGVKLALYEAEEAFRVKKILLDPINIPVLKCHDETEDVTYRQSDCIQSNPSVI 710

Query: 1159 -----DFKGVFRDLQSLIYRYSSKDNSMLAMVKAGSKGSLPKLAQQCLTLGLQYSNVPLS 1323
                  FK VFRDL  ++ ++ S DNSM+ M+ AGSKGS+ K AQQ   +GLQ       
Sbjct: 711  RSSIMAFKDVFRDLLKMVQQHVSNDNSMMVMINAGSKGSMLKYAQQTACIGLQLPASKFP 770

Query: 1324 FSIP-------WDSSLS-------SSCHVAG-----VVESSFLAGLSPSECFLHSISCRD 1446
            F IP       W+   S       +S  V G     V+++SF+ GL+P EC LH+IS R 
Sbjct: 771  FRIPSQLSCISWNGQKSLNYEAESTSERVGGQNLYAVIKNSFIEGLNPLECLLHAISGRA 830

Query: 1447 SSFSENADVPGTLNRKLMFSMRDLYMAYDGTVRYSYGNQVVQFSYGVSEDSSVLTSGNSA 1626
            + FSENADVPGTL RKLM+ +RD+++AYDGTVR SYG Q+VQFSY   +D          
Sbjct: 831  NFFSENADVPGTLTRKLMYHLRDIHVAYDGTVRSSYGQQIVQFSYDSVDD--------LV 882

Query: 1627 HQLGDPVGSLAACSISEAAYSALEKPISTFESSPLLNLKMLLDSSYKKTTVGQTVS-LFL 1803
             +LG PVG  AACSISEAAY ALE P++  E SPL+NL+ +    +K T  G  +  LFL
Sbjct: 883  DKLGAPVGCRAACSISEAAYGALEHPVNGLEDSPLMNLQEVF-KCHKATNSGDHIGLLFL 941

Query: 1804 SKKLERWLYGPEYGALTVRSHLERVLFSDIVSSVMIIFSHQRSCRPHTSPWVCHFHLHQG 1983
            S+ L+++ YG EY +L V++HLERV FSD+V ++MII+      R +   W  HFH+++ 
Sbjct: 942  SRHLKKYRYGLEYASLEVKNHLERVNFSDLVETIMIIYDGHDKIR-NEGMWTTHFHINKA 1000

Query: 1984 KMKKIGLDVQSIINALHQECDSTRQTLKVELPKLHILTRICSATNAQNEKDEDICITVEA 2163
             MKK  L ++ +++ L +E D+TR  L   +P + I  R C     +  K    CI V A
Sbjct: 1001 MMKKKRLGLRFVVDELAKEYDTTRDQLNNAIPSIRISRRKC-LVGDEGVKSSSCCIAVVA 1059

Query: 2164 EVSRNSLLVMDTFRHTVIPFLLGTVIKGFMEFKKVDILWSESNISDKASRGELYMKVHLY 2343
               RNS+  +DT +  VIP +L T++KGF+EFK V+I             GEL +KV + 
Sbjct: 1060 HAERNSISQLDTIKTRVIPSILDTLLKGFLEFKDVEIQCPHD--------GELLVKVCMS 1111

Query: 2344 EHCKSGTGWSLVVNKCLRIMDLIDWNRSHPDSMHDLFCTYGIDCSWEYFLRNLKVAVSD 2520
            EHCK G  W  + N C+ +M+LIDW  S P ++ D+FC+YGID +W+YF+ +LK A +D
Sbjct: 1112 EHCKGGRFWPTLQNACIPVMELIDWELSQPSNVSDIFCSYGIDSAWKYFVESLKSATTD 1170



 Score =  158 bits (400), Expect(2) = 0.0
 Identities = 96/262 (36%), Positives = 142/262 (54%), Gaps = 12/262 (4%)
 Frame = +2

Query: 2522 GKSILPEHLLLVADCLTVTGQFIGLNAKGIAKQRDLVSVPSPFTQACFSSPGPCFIKAAK 2701
            G++I  EHLL++AD L+VTGQF  L+++G+ +QR  +S+ SPF++ACFS P   FI AAK
Sbjct: 1172 GRNIRREHLLVIADSLSVTGQFHALSSQGLKQQRTRLSISSPFSEACFSRPAQSFINAAK 1231

Query: 2702 YGAEDGLLGVLNAAAWGKEVPLGTGGQFDIIYSGKVHEFSETLDIYNTL---------SG 2854
              + D L G L+A AWGKE   GT G F+I++SGK HE  +   IY+ L           
Sbjct: 1232 QCSVDNLCGSLDAVAWGKEPFNGTSGPFEIMHSGKPHEPEQNESIYDFLCSSKVRNFEKN 1291

Query: 2855 HLCPERQNVKISVPPTTQKWMSGKGDT---DVLQTFDSFIGKGPNNLKGLSDLVMLHKNL 3025
            HL   RQ+ + +         S KG T    V  T D        ++    +++ +  +L
Sbjct: 1292 HLDTRRQSTE-NASICRLACKSSKGSTTVNGVAITIDQDFLHAKVSI--WDNIIDMRTSL 1348

Query: 3026 QEILHRYPVNDFLNEKDKSILTSALSYHPRSXXXXXXXXXXXXXXXHQKYKYSHCFILVR 3205
            Q +L  YP+N ++ E DKS L  AL +H R                +  +  + CFIL+R
Sbjct: 1349 QNMLREYPLNGYVAEPDKSQLIEALKFHSRGAEKIGVGVREIKIGLNPSHPGTRCFILLR 1408

Query: 3206 KDGSEDDFSYRKCVRGFAKTLA 3271
             D + +DFSY KCV+G A +++
Sbjct: 1409 NDDTTEDFSYHKCVQGAADSIS 1430


>ref|NP_001182824.1| DNA dependent RNA polymerase D largest subunit [Zea mays]
            gi|219662980|gb|ACL30979.1| DNA dependent RNA polymerase
            D largest subunit [Zea mays] gi|414869425|tpg|DAA47982.1|
            TPA: putative DNA dependent RNA polymerase D largest
            subunit family protein [Zea mays]
            gi|414869426|tpg|DAA47983.1| TPA: putative DNA dependent
            RNA polymerase D largest subunit family protein [Zea
            mays]
          Length = 1444

 Score =  726 bits (1873), Expect(2) = 0.0
 Identities = 401/899 (44%), Positives = 562/899 (62%), Gaps = 60/899 (6%)
 Frame = +1

Query: 4    ASELALRVRDFLSVSKLYTEKS---SNTDVLSGLKWVKDVVLAKRTDNSFRMVVVGDPNV 174
            +S ++ RV + L  SKLY++K+   ++TD   G+KW+KDVVL+KR+DN FR ++VGDP +
Sbjct: 292  SSLVSSRVSECLKSSKLYSKKADGETSTDTY-GMKWLKDVVLSKRSDNVFRSIMVGDPKI 350

Query: 175  KLGEIGMPREICQKLIFPETLNEQNWEKLHDCCRLSILERGQFRARRKDDTIVLRNEDDL 354
            KL EIG+P ++   L+  E ++  N++  +  C L +L + +   RR    + LR  D L
Sbjct: 351  KLWEIGIPEDLSSSLVVSEHVSSYNFQSTNLKCNLHLLAKQELFIRRNGKLMFLRKADQL 410

Query: 355  KIGDIVYRHLDEGDLLLLNRPPSIHQHSLIALSVRVLPMDSVVLLNPICCSPFRGDFDGD 534
            +IGDI YR L +GD++L+NRPPS+HQHSLIALS ++LP+ SVV +NP+CC+PF GDFDGD
Sbjct: 411  EIGDIAYRPLQDGDIILINRPPSVHQHSLIALSAKILPIHSVVSINPLCCTPFAGDFDGD 470

Query: 535  CFHGYIPQSIKSRVELQELVCIDRQLVNGQNGRNLISLCHDSLSAAHLLREKGEFLNKVE 714
            C HGYIPQSI+SRVEL+ELV +  QL+N Q+GRNL+SL HDSL+AAHLL     FL K E
Sbjct: 471  CLHGYIPQSIRSRVELEELVSLHNQLLNMQDGRNLVSLTHDSLAAAHLLTSTDVFLKKSE 530

Query: 715  MQQLGMLC-SRQLPYPAIVRATD-HNPIWTGNQLLSMLLPVSFDYSSLSGVHISNGEIIS 888
            +QQL MLC S   P PA++++ +    +WTG QL SMLLP   ++S  + +HI + E+++
Sbjct: 531  LQQLQMLCLSVSTPAPAVIKSMNFQGSLWTGKQLFSMLLPSGMNFSCDTELHIMDSEVLT 590

Query: 889  AP-GSSWLQDTDGNLFISLVKLYGSKAVDIIFTIQEVLLEWISMRGFSVSLSDLFVSCDS 1065
               GSSWLQ+    LF  + K YG KA+D + + QEVL E+++MRG SVSLSDL++  D 
Sbjct: 591  CSLGSSWLQNNTSGLFSVMFKQYGCKALDFLSSAQEVLCEFLTMRGLSVSLSDLYMFSDH 650

Query: 1066 YTWDKMTEEVRSGLQEAKKGLK---------------------NVLSKQSVC-------- 1158
            Y+  K+ E V+  L EA++  +                     +V  +QS C        
Sbjct: 651  YSRRKLAEGVKLALYEAEEAFRVKKILLDPINIPVLKCHDETEDVTYRQSDCIQSNPSVI 710

Query: 1159 -----DFKGVFRDLQSLIYRYSSKDNSMLAMVKAGSKGSLPKLAQQCLTLGLQYSNVPLS 1323
                  FK VFRDL  ++ ++ S DNSM+ M+ AGSKGS+ K AQQ   +GLQ       
Sbjct: 711  RSSIMAFKDVFRDLLKMVQQHVSNDNSMMVMINAGSKGSMLKYAQQTACIGLQLPASKFP 770

Query: 1324 FSIP-------WDSSLS-------SSCHVAG-----VVESSFLAGLSPSECFLHSISCRD 1446
            F IP       W+   S       +S  V G     V+++SF+ GL+P EC LH+IS R 
Sbjct: 771  FRIPSQLSCISWNGQKSLNYEAESTSERVGGQNLYAVIKNSFIEGLNPLECLLHAISGRA 830

Query: 1447 SSFSENADVPGTLNRKLMFSMRDLYMAYDGTVRYSYGNQVVQFSYGVSEDSSVLTSGNSA 1626
            + FSENADVPGTL RKLM+ +RD+++AYDGTVR SYG Q+VQFSY   +D          
Sbjct: 831  NFFSENADVPGTLTRKLMYHLRDIHVAYDGTVRSSYGQQIVQFSYDSVDD--------LV 882

Query: 1627 HQLGDPVGSLAACSISEAAYSALEKPISTFESSPLLNLKMLLDSSYKKTTVGQTVS-LFL 1803
             +LG PVG  AACSISEAAY ALE P++  E SPL+NL+ +    +K T  G  +  LFL
Sbjct: 883  DKLGAPVGCRAACSISEAAYGALEHPVNGLEDSPLMNLQEVF-KCHKATNSGDHIGLLFL 941

Query: 1804 SKKLERWLYGPEYGALTVRSHLERVLFSDIVSSVMIIFSHQRSCRPHTSPWVCHFHLHQG 1983
            S+ L+++ YG EY +L V++HLERV FSD+V ++MII+      R +   W  HFH+++ 
Sbjct: 942  SRHLKKYRYGLEYASLEVKNHLERVNFSDLVETIMIIYDGHDKIR-NEGMWTTHFHINKA 1000

Query: 1984 KMKKIGLDVQSIINALHQECDSTRQTLKVELPKLHILTRICSATNAQNEKDEDICITVEA 2163
             MKK  L ++ +++ L +E D+TR  L   +P + I  R C     +  K    CI V A
Sbjct: 1001 MMKKKRLGLRFVVDELAKEYDTTRDQLNNAIPSIRISRRKC-LVGDEGVKSSSCCIAVVA 1059

Query: 2164 EVSRNSLLVMDTFRHTVIPFLLGTVIKGFMEFKKVDILWSESNISDKASRGELYMKVHLY 2343
               RNS+  +DT +  VIP +L T++KGF+EFK V+I             GEL +KV + 
Sbjct: 1060 HAERNSISQLDTIKTRVIPSILDTLLKGFLEFKDVEIQCPHD--------GELLVKVCMS 1111

Query: 2344 EHCKSGTGWSLVVNKCLRIMDLIDWNRSHPDSMHDLFCTYGIDCSWEYFLRNLKVAVSD 2520
            EHCK G  W  + N C+ +M+LIDW  S P ++ D+FC+YGID +W+YF+ +LK A +D
Sbjct: 1112 EHCKGGRFWPTLQNACIPVMELIDWELSQPSNVSDIFCSYGIDSAWKYFVESLKSATTD 1170



 Score =  158 bits (400), Expect(2) = 0.0
 Identities = 96/262 (36%), Positives = 142/262 (54%), Gaps = 12/262 (4%)
 Frame = +2

Query: 2522 GKSILPEHLLLVADCLTVTGQFIGLNAKGIAKQRDLVSVPSPFTQACFSSPGPCFIKAAK 2701
            G++I  EHLL++AD L+VTGQF  L+++G+ +QR  +S+ SPF++ACFS P   FI AAK
Sbjct: 1172 GRNIRREHLLVIADSLSVTGQFHALSSQGLKQQRTRLSISSPFSEACFSRPAQSFINAAK 1231

Query: 2702 YGAEDGLLGVLNAAAWGKEVPLGTGGQFDIIYSGKVHEFSETLDIYNTL---------SG 2854
              + D L G L+A AWGKE   GT G F+I++SGK HE  +   IY+ L           
Sbjct: 1232 QCSVDNLCGSLDAVAWGKEPFNGTSGPFEIMHSGKPHEPEQNESIYDFLCSSKVRNFEKN 1291

Query: 2855 HLCPERQNVKISVPPTTQKWMSGKGDT---DVLQTFDSFIGKGPNNLKGLSDLVMLHKNL 3025
            HL   RQ+ + +         S KG T    V  T D        ++    +++ +  +L
Sbjct: 1292 HLDTRRQSTE-NASICRLACKSSKGSTTVNGVAITIDQDFLHAKVSI--WDNIIDMRTSL 1348

Query: 3026 QEILHRYPVNDFLNEKDKSILTSALSYHPRSXXXXXXXXXXXXXXXHQKYKYSHCFILVR 3205
            Q +L  YP+N ++ E DKS L  AL +H R                +  +  + CFIL+R
Sbjct: 1349 QNMLREYPLNGYVAEPDKSQLIEALKFHSRGAEKIGVGVREIKIGLNPSHPGTRCFILLR 1408

Query: 3206 KDGSEDDFSYRKCVRGFAKTLA 3271
             D + +DFSY KCV+G A +++
Sbjct: 1409 NDDTTEDFSYHKCVQGAADSIS 1430