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= Catharanthus23_contig00029547
         (498 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|XP_004245657.1| PREDICTED: DNA-directed RNA polymerase D sub...   152   4e-35
ref|XP_006358858.1| PREDICTED: DNA-directed RNA polymerase IV su...   152   6e-35
gb|EOY24612.1| DNA-directed RNA polymerase II subunit RPB1-B, pu...   142   4e-32
emb|CAN66198.1| hypothetical protein VITISV_011232 [Vitis vinifera]   139   3e-31
ref|XP_004147993.1| PREDICTED: DNA-directed RNA polymerase D sub...   134   1e-29
emb|CBI34757.3| unnamed protein product [Vitis vinifera]              134   2e-29
ref|XP_004511611.1| PREDICTED: DNA-directed RNA polymerase D sub...   130   2e-28
ref|XP_004511607.1| PREDICTED: DNA-directed RNA polymerase D sub...   130   2e-28
gb|ESW30448.1| hypothetical protein PHAVU_002G153700g [Phaseolus...   127   1e-27
gb|ESW30447.1| hypothetical protein PHAVU_002G153700g [Phaseolus...   127   1e-27
ref|XP_002509696.1| DNA-directed RNA polymerase, putative [Ricin...   127   1e-27
ref|XP_006477375.1| PREDICTED: DNA-directed RNA polymerase IV su...   127   2e-27
ref|XP_006477376.1| PREDICTED: DNA-directed RNA polymerase IV su...   126   3e-27
ref|XP_006440521.1| hypothetical protein CICLE_v10018489mg [Citr...   126   3e-27
gb|EMJ12114.1| hypothetical protein PRUPE_ppa000278mg [Prunus pe...   126   3e-27
ref|XP_002275898.2| PREDICTED: LOW QUALITY PROTEIN: DNA-directed...   122   4e-26
ref|XP_004298730.1| PREDICTED: DNA-directed RNA polymerase D sub...   119   4e-25
ref|NP_176490.2| DNA-directed RNA polymerase IV subunit 1 [Arabi...   119   6e-25
ref|XP_003611164.1| DNA-directed RNA polymerase subunit beta [Me...   116   4e-24
ref|XP_002886441.1| NRPD1a [Arabidopsis lyrata subsp. lyrata] gi...   116   4e-24

>ref|XP_004245657.1| PREDICTED: DNA-directed RNA polymerase D subunit 1 [Solanum
           lycopersicum]
          Length = 1446

 Score =  152 bits (384), Expect = 4e-35
 Identities = 77/145 (53%), Positives = 101/145 (69%)
 Frame = -2

Query: 437 MENEGHAEQQEVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQ 258
           ME++ + EQQ    +P+  +R I+FSIL+E +A K++AKVIG V+EVTDPALG PN   Q
Sbjct: 1   MEHDRNIEQQ----VPDGILRGINFSILSETDAAKLSAKVIGAVNEVTDPALGFPNPIFQ 56

Query: 257 CLTCGGKCLKTCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEYA 78
           C TCG    K CEGHFG++NFPYTI+NPYF+ EVA+IL +ICP CKS+  D K+K ++  
Sbjct: 57  CTTCGANDGKKCEGHFGLVNFPYTILNPYFVSEVAQILKKICPGCKSVRRD-KVKVSD-- 113

Query: 77  IFRGKRKKCKYCDGKFRSSYPIMRF 3
               +   CKYCDG  R  YP  +F
Sbjct: 114 ----RTSACKYCDGVLR-GYPPTKF 133


>ref|XP_006358858.1| PREDICTED: DNA-directed RNA polymerase IV subunit 1-like isoform X1
           [Solanum tuberosum]
          Length = 1446

 Score =  152 bits (383), Expect = 6e-35
 Identities = 77/145 (53%), Positives = 100/145 (68%)
 Frame = -2

Query: 437 MENEGHAEQQEVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQ 258
           ME++ + EQQ    +PE  +  I+FSIL+E +A K++AKVIG V+EVTDPALG PN   Q
Sbjct: 1   MEHDRNIEQQ----VPEGILTGINFSILSETDAAKLSAKVIGAVNEVTDPALGFPNPIFQ 56

Query: 257 CLTCGGKCLKTCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEYA 78
           C TCG    K CEGHFG++NFPYTI+NPYF+ EVA+IL +ICP CKS+  D K+K ++  
Sbjct: 57  CTTCGANDGKKCEGHFGLVNFPYTILNPYFVSEVAQILKKICPGCKSVRRD-KVKGSD-- 113

Query: 77  IFRGKRKKCKYCDGKFRSSYPIMRF 3
               +   CKYCDG  R  YP  +F
Sbjct: 114 ----RTSACKYCDGVLR-GYPPTKF 133


>gb|EOY24612.1| DNA-directed RNA polymerase II subunit RPB1-B, putative [Theobroma
           cacao]
          Length = 1484

 Score =  142 bits (359), Expect = 4e-32
 Identities = 70/148 (47%), Positives = 91/148 (61%)
 Frame = -2

Query: 446 LASMENEGHAEQQEVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNL 267
           + SMEN+ +  +Q    +P A V  I F++  + +  K++   I   SEV+DP LG PN 
Sbjct: 1   MTSMENDLYEAEQ----LPAAFVTGIRFNVSNDRDNEKMSVMEIAAPSEVSDPKLGFPNF 56

Query: 266 SNQCLTCGGKCLKTCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSA 87
           SN C TCG   +K CEGHFG+INFPY I++PYFL EV +ILN+ICP CKS+  D +IK A
Sbjct: 57  SNHCTTCGAADMKHCEGHFGVINFPYAILHPYFLSEVVQILNKICPGCKSVRKDLRIKGA 116

Query: 86  EYAIFRGKRKKCKYCDGKFRSSYPIMRF 3
                  +RK CKYC G     YP M F
Sbjct: 117 NSVSKVNQRKGCKYCVGNSIDWYPPMNF 144


>emb|CAN66198.1| hypothetical protein VITISV_011232 [Vitis vinifera]
          Length = 1393

 Score =  139 bits (351), Expect = 3e-31
 Identities = 68/145 (46%), Positives = 89/145 (61%)
 Frame = -2

Query: 437 MENEGHAEQQEVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQ 258
           M+N+   EQQ    +P   +  I F + TE +  KI+   I  V+E+TDP LG+PN S Q
Sbjct: 1   MDNDFLEEQQ----VPSGLLIGIKFDVSTEEDMEKISVMKIDAVNEITDPKLGVPNPSCQ 56

Query: 257 CLTCGGKCLKTCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEYA 78
           C TCG K  K CEGHFG+I FP+TI++PYFL EV +ILN+ICP CKS    + +K A+  
Sbjct: 57  CSTCGAKDTKKCEGHFGVIKFPFTILHPYFLTEVVQILNKICPGCKSTRQGQWVKGADSG 116

Query: 77  IFRGKRKKCKYCDGKFRSSYPIMRF 3
             R + K CKYC       YP M+F
Sbjct: 117 SRRLRSKGCKYCAANSNDWYPTMKF 141


>ref|XP_004147993.1| PREDICTED: DNA-directed RNA polymerase D subunit 1-like [Cucumis
           sativus] gi|449494342|ref|XP_004159519.1| PREDICTED: LOW
           QUALITY PROTEIN: DNA-directed RNA polymerase D subunit
           1-like [Cucumis sativus]
          Length = 1469

 Score =  134 bits (337), Expect = 1e-29
 Identities = 63/138 (45%), Positives = 84/138 (60%)
 Frame = -2

Query: 416 EQQEVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQCLTCGGK 237
           EQ     IP   +  I+FS+  + +   IA   +   +EV+DP LG+PN S QC TCG  
Sbjct: 4   EQDGELPIPSGLLTGINFSVSNQQDIENIAVITVDAANEVSDPKLGLPNPSYQCTTCGAS 63

Query: 236 CLKTCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEYAIFRGKRK 57
            LK CEGHFG+I FPYTII+PYFL EVA++LN++CP CKS+  +   K  +      + K
Sbjct: 64  SLKFCEGHFGVIKFPYTIIHPYFLSEVAQVLNKVCPGCKSVRQELWGKVEDPTSDYNRPK 123

Query: 56  KCKYCDGKFRSSYPIMRF 3
            C+YC G  +  YP MRF
Sbjct: 124 GCRYCFGSLKDWYPPMRF 141


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

 Score =  134 bits (336), Expect = 2e-29
 Identities = 67/145 (46%), Positives = 88/145 (60%)
 Frame = -2

Query: 437 MENEGHAEQQEVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQ 258
           M+N+   EQQ    +P   +  I F + TE +  KI+   I  V+E+TDP LG+PN S Q
Sbjct: 1   MDNDFLEEQQ----VPSGLLIGIKFDVSTEEDMEKISVMKIDAVNEITDPKLGVPNPSCQ 56

Query: 257 CLTCGGKCLKTCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEYA 78
           C TCG K  K CEGHFG+I FP+TI++PYFL EV +ILN+ICP CKS    + +K     
Sbjct: 57  CSTCGAKDTKKCEGHFGVIKFPFTILHPYFLTEVVQILNKICPGCKSTRQGQWVK----- 111

Query: 77  IFRGKRKKCKYCDGKFRSSYPIMRF 3
           + R + K CKYC       YP M+F
Sbjct: 112 VRRLRSKGCKYCAANSNDWYPTMKF 136


>ref|XP_004511611.1| PREDICTED: DNA-directed RNA polymerase D subunit 1-like isoform X5
           [Cicer arietinum]
          Length = 1474

 Score =  130 bits (326), Expect = 2e-28
 Identities = 61/131 (46%), Positives = 86/131 (65%)
 Frame = -2

Query: 395 IPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQCLTCGGKCLKTCEG 216
           +P   +++I F +LT  +  KI+A  I   ++VT   LG+PNLS  C TCG K  K+CEG
Sbjct: 12  VPSGLIKAIKFDVLTGEDIEKISALEINAPTQVTCSDLGLPNLSLGCTTCGSKDRKSCEG 71

Query: 215 HFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEYAIFRGKRKKCKYCDG 36
           HFG I FP+TI++PYF+ E+A+ILN+ICPACKS+  + +IK  +  +   + K CKYC G
Sbjct: 72  HFGAIKFPFTILHPYFMAEIAEILNKICPACKSIRRELRIKRVKSLLGFNQPKGCKYC-G 130

Query: 35  KFRSSYPIMRF 3
                YP M+F
Sbjct: 131 NGMGRYPTMKF 141


>ref|XP_004511607.1| PREDICTED: DNA-directed RNA polymerase D subunit 1-like isoform X1
           [Cicer arietinum] gi|502160026|ref|XP_004511608.1|
           PREDICTED: DNA-directed RNA polymerase D subunit 1-like
           isoform X2 [Cicer arietinum]
           gi|502160029|ref|XP_004511609.1| PREDICTED: DNA-directed
           RNA polymerase D subunit 1-like isoform X3 [Cicer
           arietinum] gi|502160032|ref|XP_004511610.1| PREDICTED:
           DNA-directed RNA polymerase D subunit 1-like isoform X4
           [Cicer arietinum]
          Length = 1475

 Score =  130 bits (326), Expect = 2e-28
 Identities = 61/131 (46%), Positives = 86/131 (65%)
 Frame = -2

Query: 395 IPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQCLTCGGKCLKTCEG 216
           +P   +++I F +LT  +  KI+A  I   ++VT   LG+PNLS  C TCG K  K+CEG
Sbjct: 12  VPSGLIKAIKFDVLTGEDIEKISALEINAPTQVTCSDLGLPNLSLGCTTCGSKDRKSCEG 71

Query: 215 HFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEYAIFRGKRKKCKYCDG 36
           HFG I FP+TI++PYF+ E+A+ILN+ICPACKS+  + +IK  +  +   + K CKYC G
Sbjct: 72  HFGAIKFPFTILHPYFMAEIAEILNKICPACKSIRRELRIKRVKSLLGFNQPKGCKYC-G 130

Query: 35  KFRSSYPIMRF 3
                YP M+F
Sbjct: 131 NGMGRYPTMKF 141


>gb|ESW30448.1| hypothetical protein PHAVU_002G153700g [Phaseolus vulgaris]
          Length = 1464

 Score =  127 bits (320), Expect = 1e-27
 Identities = 62/131 (47%), Positives = 83/131 (63%), Gaps = 1/131 (0%)
 Frame = -2

Query: 392 PEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQCLTCGGKCLKTCEGH 213
           P   +R+I F +LTE +  K++   I    +VT   LG+PN S++C TCG K  K CEGH
Sbjct: 12  PSGVIRAIKFDVLTENDIEKVSVLEINAAGQVTGSTLGLPNTSDECATCGSKNKKICEGH 71

Query: 212 FGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEYAIFRGKRK-KCKYCDG 36
           FG+I FP+ I++PYF+ E+A+ILN+ICP CKS+    K K A+  IF  KR   CKYC G
Sbjct: 72  FGVIKFPFPILHPYFMSEIAQILNKICPVCKSIR--HKSKGAQ-LIFGIKRSINCKYCSG 128

Query: 35  KFRSSYPIMRF 3
                YP M+F
Sbjct: 129 NGVGRYPAMKF 139


>gb|ESW30447.1| hypothetical protein PHAVU_002G153700g [Phaseolus vulgaris]
          Length = 1463

 Score =  127 bits (320), Expect = 1e-27
 Identities = 62/131 (47%), Positives = 83/131 (63%), Gaps = 1/131 (0%)
 Frame = -2

Query: 392 PEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQCLTCGGKCLKTCEGH 213
           P   +R+I F +LTE +  K++   I    +VT   LG+PN S++C TCG K  K CEGH
Sbjct: 12  PSGVIRAIKFDVLTENDIEKVSVLEINAAGQVTGSTLGLPNTSDECATCGSKNKKICEGH 71

Query: 212 FGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEYAIFRGKRK-KCKYCDG 36
           FG+I FP+ I++PYF+ E+A+ILN+ICP CKS+    K K A+  IF  KR   CKYC G
Sbjct: 72  FGVIKFPFPILHPYFMSEIAQILNKICPVCKSIR--HKSKGAQ-LIFGIKRSINCKYCSG 128

Query: 35  KFRSSYPIMRF 3
                YP M+F
Sbjct: 129 NGVGRYPAMKF 139


>ref|XP_002509696.1| DNA-directed RNA polymerase, putative [Ricinus communis]
           gi|223549595|gb|EEF51083.1| DNA-directed RNA polymerase,
           putative [Ricinus communis]
          Length = 1475

 Score =  127 bits (320), Expect = 1e-27
 Identities = 55/106 (51%), Positives = 78/106 (73%)
 Frame = -2

Query: 410 QEVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQCLTCGGKCL 231
           +E   +P A + +I+F + TEAE  K++   I  VSEVTD  LG+PN +NQC TCG K L
Sbjct: 7   EERQQLPSALLTAITFGVSTEAEKEKLSVLTIDTVSEVTDSKLGLPNPTNQCSTCGSKDL 66

Query: 230 KTCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIK 93
           K+CEGHFG+I FP+TI++PY+L EV +ILN++CP CKS+  + K++
Sbjct: 67  KSCEGHFGVIKFPFTILHPYYLSEVVRILNQVCPKCKSIRKESKVR 112


>ref|XP_006477375.1| PREDICTED: DNA-directed RNA polymerase IV subunit 1-like isoform X1
           [Citrus sinensis]
          Length = 1481

 Score =  127 bits (319), Expect = 2e-27
 Identities = 65/146 (44%), Positives = 90/146 (61%)
 Frame = -2

Query: 440 SMENEGHAEQQEVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSN 261
           SM+NE   E  EV   P   +  IS  I T+ E  K++   IG VSEVT+P LG+PN +N
Sbjct: 38  SMDNEFCEEGLEV---PSGILTGISLGISTDTEKEKLSVMEIGAVSEVTNPRLGLPNPTN 94

Query: 260 QCLTCGGKCLKTCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEY 81
           +C +CG K  K CEGHFG I FP+TI++PYFL ++AK+LN ICP CK++  +++  +   
Sbjct: 95  ECSSCGAKDRKACEGHFGFIKFPFTILHPYFLSDIAKLLNSICPKCKTIRKERQKGAGSS 154

Query: 80  AIFRGKRKKCKYCDGKFRSSYPIMRF 3
              + + + CKYC       YP MRF
Sbjct: 155 R--KEQPRVCKYCVRNPAQWYPRMRF 178


>ref|XP_006477376.1| PREDICTED: DNA-directed RNA polymerase IV subunit 1-like isoform X2
           [Citrus sinensis] gi|568847098|ref|XP_006477377.1|
           PREDICTED: DNA-directed RNA polymerase IV subunit 1-like
           isoform X3 [Citrus sinensis]
           gi|568847100|ref|XP_006477378.1| PREDICTED: DNA-directed
           RNA polymerase IV subunit 1-like isoform X4 [Citrus
           sinensis]
          Length = 1443

 Score =  126 bits (316), Expect = 3e-27
 Identities = 59/136 (43%), Positives = 86/136 (63%)
 Frame = -2

Query: 410 QEVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQCLTCGGKCL 231
           +E  ++P   +  IS  I T+ E  K++   IG VSEVT+P LG+PN +N+C +CG K  
Sbjct: 7   EEGLEVPSGILTGISLGISTDTEKEKLSVMEIGAVSEVTNPRLGLPNPTNECSSCGAKDR 66

Query: 230 KTCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEYAIFRGKRKKC 51
           K CEGHFG I FP+TI++PYFL ++AK+LN ICP CK++  +++  +      + + + C
Sbjct: 67  KACEGHFGFIKFPFTILHPYFLSDIAKLLNSICPKCKTIRKERQKGAGSSR--KEQPRVC 124

Query: 50  KYCDGKFRSSYPIMRF 3
           KYC       YP MRF
Sbjct: 125 KYCVRNPAQWYPRMRF 140


>ref|XP_006440521.1| hypothetical protein CICLE_v10018489mg [Citrus clementina]
           gi|557542783|gb|ESR53761.1| hypothetical protein
           CICLE_v10018489mg [Citrus clementina]
          Length = 1443

 Score =  126 bits (316), Expect = 3e-27
 Identities = 59/136 (43%), Positives = 86/136 (63%)
 Frame = -2

Query: 410 QEVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQCLTCGGKCL 231
           +E  ++P   +  IS  I T+ E  K++   IG VSEVT+P LG+PN +N+C +CG K  
Sbjct: 7   EEGLEVPSGILTGISLGISTDTEKEKLSVMEIGAVSEVTNPRLGLPNPTNECSSCGAKDR 66

Query: 230 KTCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEYAIFRGKRKKC 51
           K CEGHFG I FP+TI++PYFL ++AK+LN ICP CK++  +++  +      + + + C
Sbjct: 67  KACEGHFGFIKFPFTILHPYFLSDIAKLLNSICPKCKTIRKERQKGAGSSR--KEQPRVC 124

Query: 50  KYCDGKFRSSYPIMRF 3
           KYC       YP MRF
Sbjct: 125 KYCVRNPAQWYPRMRF 140


>gb|EMJ12114.1| hypothetical protein PRUPE_ppa000278mg [Prunus persica]
          Length = 1356

 Score =  126 bits (316), Expect = 3e-27
 Identities = 66/152 (43%), Positives = 92/152 (60%), Gaps = 7/152 (4%)
 Frame = -2

Query: 437 MENEGHAEQQEVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQ 258
           M+NE + E+     +P   +  I  ++ T+ +   I+ K I  V+EVTDP LG+PN S Q
Sbjct: 1   MDNELYEEE----GVPSGLITGIHLNVSTQEDIENISVKQIDAVTEVTDPKLGLPNPSFQ 56

Query: 257 CLTCGGKCLKTCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSL-------AADKK 99
           C TCG + LK CEGHFG I FP TI++PY+L EV +ILN+ICP CKS+        +++ 
Sbjct: 57  CSTCGAEKLKCCEGHFGDIKFPCTILHPYYLSEVTQILNKICPGCKSIRQNLRAKVSNRT 116

Query: 98  IKSAEYAIFRGKRKKCKYCDGKFRSSYPIMRF 3
           ++ A   I   K K CKYC G    +YP M+F
Sbjct: 117 LRGAGSVIGHRKLKGCKYCIGS-SINYPRMKF 147


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

 Score =  122 bits (307), Expect = 4e-26
 Identities = 68/178 (38%), Positives = 89/178 (50%), Gaps = 33/178 (18%)
 Frame = -2

Query: 437 MENEGHAEQQEVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQ 258
           M+N+   EQQ    +P   +  I F + TE +  KI+   I  V+E+TDP LG+PN S Q
Sbjct: 1   MDNDFLEEQQ----VPSGLLIGIKFDVSTEEDMEKISVMKIDAVNEITDPKLGVPNPSCQ 56

Query: 257 CLTCGGKCLKTCEG---------------------------------HFGIINFPYTIIN 177
           C TCG K  K CEG                                 HFG+I FP+TI++
Sbjct: 57  CSTCGAKDTKKCEGAVRQVIQKLYLLMISCYLYFLEYAKLXLFIFLGHFGVIKFPFTILH 116

Query: 176 PYFLPEVAKILNRICPACKSLAADKKIKSAEYAIFRGKRKKCKYCDGKFRSSYPIMRF 3
           PYFL EV +ILN+ICP CKS    + +K A+    R + K CKYC       YP M+F
Sbjct: 117 PYFLTEVVQILNKICPGCKSTRQGQWVKGADSGSRRLRSKGCKYCAANSNDWYPTMKF 174


>ref|XP_004298730.1| PREDICTED: DNA-directed RNA polymerase D subunit 1-like [Fragaria
           vesca subsp. vesca]
          Length = 1438

 Score =  119 bits (298), Expect = 4e-25
 Identities = 61/146 (41%), Positives = 89/146 (60%), Gaps = 1/146 (0%)
 Frame = -2

Query: 437 MENE-GHAEQQEVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSN 261
           M+NE  H EQ     +P A +  +  ++ T  +  KI+  +I   ++V DP LG+PN ++
Sbjct: 1   MDNELNHGEQ-----LPRACITGVHLNVSTREDTEKISTLLIETAAQVNDPKLGLPNPTS 55

Query: 260 QCLTCGGKCLKTCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEY 81
           QC TCG +  K C+GHFG I FP +I++PY+L EV+ ILN+ICPACK++    ++K +E 
Sbjct: 56  QCSTCGAQDTKLCDGHFGSIKFPCSILHPYYLSEVSLILNKICPACKAIKQGVRVKGSE- 114

Query: 80  AIFRGKRKKCKYCDGKFRSSYPIMRF 3
                 RK C+YC     S YP MRF
Sbjct: 115 ------RKGCRYCFVS-SSDYPRMRF 133


>ref|NP_176490.2| DNA-directed RNA polymerase IV subunit 1 [Arabidopsis thaliana]
           gi|334183598|ref|NP_001185298.1| DNA-directed RNA
           polymerase IV subunit 1 [Arabidopsis thaliana]
           gi|75335311|sp|Q9LQ02.1|NRPD1_ARATH RecName:
           Full=DNA-directed RNA polymerase IV subunit 1; AltName:
           Full=DNA-directed RNA polymerase D subunit 1;
           Short=AtNRPD1a; Short=Nuclear RNA polymerase D 1a;
           AltName: Full=Protein RNA-DIRECTED DNA METHYLATION
           DEFECTIVE 3; AltName: Full=Protein SILENCING DEFECTIVE
           4; AltName: Full=Protein SILENCING MOVEMENT DEFICIENT 2;
           AltName: Full=RNA polymerase IV subunit 1a; Short=POL IV
           1a gi|8493592|gb|AAF75815.1|AC011000_18 Contains
           similarity to DNA-directed RNA Polymerase alpha-subunit
           from Methanococcus jannaschii gi|3915860 and contains
           Ribosomal protein L36 PF|00444 and RNA-Polymerase
           alpha-subunit PF|00623 domains. EST gb|AA597311 comes
           from this gene [Arabidopsis thaliana]
           gi|12323252|gb|AAG51604.1|AC010795_8 RNA polymerase IIA
           largest subunit, putative; 12353-6556 [Arabidopsis
           thaliana] gi|59939208|gb|AAX12372.1| DNA-directed RNA
           polymerase beta subunit [Arabidopsis thaliana]
           gi|68300852|gb|AAY89363.1| RNA polymerase IV largest
           subunit [Arabidopsis thaliana]
           gi|332195920|gb|AEE34041.1| nuclear RNA polymerase D1A
           [Arabidopsis thaliana] gi|332195921|gb|AEE34042.1|
           nuclear RNA polymerase D1A [Arabidopsis thaliana]
          Length = 1453

 Score =  119 bits (297), Expect = 6e-25
 Identities = 57/135 (42%), Positives = 81/135 (60%)
 Frame = -2

Query: 407 EVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQCLTCGGKCLK 228
           E   +P   + SI FSI    +  K++   +   ++VTD  LG+PN  + C TCG K  K
Sbjct: 6   EELQVPVGTLTSIGFSISNNNDRDKMSVLEVEAPNQVTDSRLGLPNPDSVCRTCGSKDRK 65

Query: 227 TCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEYAIFRGKRKKCK 48
            CEGHFG+INF Y+IINPYFL EVA +LN+ICP C      K I+  ++ I   + ++C+
Sbjct: 66  VCEGHFGVINFAYSIINPYFLKEVAALLNKICPGC------KYIRKKQFQITEDQPERCR 119

Query: 47  YCDGKFRSSYPIMRF 3
           YC     + YP+M+F
Sbjct: 120 YC--TLNTGYPLMKF 132


>ref|XP_003611164.1| DNA-directed RNA polymerase subunit beta [Medicago truncatula]
           gi|355512499|gb|AES94122.1| DNA-directed RNA polymerase
           subunit beta [Medicago truncatula]
          Length = 1687

 Score =  116 bits (290), Expect = 4e-24
 Identities = 54/112 (48%), Positives = 74/112 (66%), Gaps = 1/112 (0%)
 Frame = -2

Query: 335 KIAAKVIGVVSEVTDPALGIPNLSNQCLTCGGKCLKTCEGHFGIINFPYTIINPYFLPEV 156
           KI+A  I    +VT   LG+PN S  C TCG K  K+CEGHFG I FP+TI++PYF+ E+
Sbjct: 182 KISALEINAPGQVTCSDLGLPNSSYGCTTCGSKDRKSCEGHFGAIKFPFTILHPYFMAEI 241

Query: 155 AKILNRICPACKSLAADKKIKSAEYAI-FRGKRKKCKYCDGKFRSSYPIMRF 3
           A+IL +ICPACKS+  + ++K A+  + +  + K CKYC G     YP M+F
Sbjct: 242 AEILQKICPACKSIRQEIRVKRAKSLLGYNNQPKGCKYCCGNGMGRYPAMKF 293


>ref|XP_002886441.1| NRPD1a [Arabidopsis lyrata subsp. lyrata]
           gi|297332282|gb|EFH62700.1| NRPD1a [Arabidopsis lyrata
           subsp. lyrata]
          Length = 1456

 Score =  116 bits (290), Expect = 4e-24
 Identities = 55/135 (40%), Positives = 80/135 (59%)
 Frame = -2

Query: 407 EVADIPEARVRSISFSILTEAEAGKIAAKVIGVVSEVTDPALGIPNLSNQCLTCGGKCLK 228
           E   +P   + SI FSI    +   ++   +   ++VTD  LG+PN  + C TCG K  K
Sbjct: 6   EELQVPVGTLTSIGFSISNNTDRDTMSVIKVEAPNQVTDSRLGLPNPDSICKTCGSKDRK 65

Query: 227 TCEGHFGIINFPYTIINPYFLPEVAKILNRICPACKSLAADKKIKSAEYAIFRGKRKKCK 48
            CEGHFG+INF Y+IINPYFL E+A +LN+ICP C      K I+  ++ I   + ++C+
Sbjct: 66  VCEGHFGVINFQYSIINPYFLKEIAALLNKICPGC------KYIRKKQFQITEDQPERCR 119

Query: 47  YCDGKFRSSYPIMRF 3
           YC     + YP+M+F
Sbjct: 120 YCTS--NTGYPLMKF 132