Jatropha Genome Database

Jcr4S02936.20
Show Alignment: 
BLASTP 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.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= Jcr4S02936.20
         (195 letters)

Database: TAIR10_pep 
           35,386 sequences; 14,482,855 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ATCG00180.1 | Symbols: RPOC1 | DNA-directed RNA polymerase famil...   365   e-102
AT5G60040.1 | Symbols: NRPC1 | nuclear RNA polymerase C1 | chr5:...    99   2e-21
AT5G60040.2 | Symbols: NRPC1 | nuclear RNA polymerase C1 | chr5:...    99   2e-21
AT4G35800.1 | Symbols: NRPB1, RPB1, RNA_POL_II_LSRNA_POL_II_LS, ...    82   2e-16
AT1G63020.2 | Symbols: NRPD1A | nuclear RNA polymerase D1A | chr...    72   3e-13
AT1G63020.1 | Symbols: NRPD1A, POL IVA, SDE4, NRPD1, SMD2 | nucl...    72   3e-13
AT3G57660.1 | Symbols: NRPA1 | nuclear RNA polymerase A1 | chr3:...    69   2e-12
AT2G40030.1 | Symbols: NRPD1B, DRD3, ATNRPD1B, DMS5, NRPE1 | nuc...    65   4e-11

>ATCG00180.1 | Symbols: RPOC1 | DNA-directed RNA polymerase family
           protein | chrC:20251-23084 REVERSE LENGTH=680
          Length = 680

 Score =  365 bits (937), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 176/184 (95%), Positives = 180/184 (97%)

Query: 1   MLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQIFVIRGLIRQHLASNIGVAKSKI 60
           +LGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQ FVIRGLIRQHLASNIGVAKS+I
Sbjct: 371 LLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFVIRGLIRQHLASNIGVAKSQI 430

Query: 61  REKEPIVWEILQEVMQGHPVLLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADF 120
           REK+PIVWEILQEVMQGHPVLLNRAPTLHRLGIQ+FQPILVEGR ICLHPLVCKGFNADF
Sbjct: 431 REKKPIVWEILQEVMQGHPVLLNRAPTLHRLGIQSFQPILVEGRTICLHPLVCKGFNADF 490

Query: 121 DGDQMAVHVPLSLEAQTEARLLMFSHMNLLSPAIGDPISVPTQDMLIGLYVLTSGNRRGI 180
           DGDQMAVHVPLSLEAQ EARLLMFSHMNLLSPAIGDPISVPTQDMLIGLYVLTSG RRGI
Sbjct: 491 DGDQMAVHVPLSLEAQAEARLLMFSHMNLLSPAIGDPISVPTQDMLIGLYVLTSGTRRGI 550

Query: 181 CANR 184
           CANR
Sbjct: 551 CANR 554


>AT5G60040.1 | Symbols: NRPC1 | nuclear RNA polymerase C1 |
           chr5:24173590-24183269 FORWARD LENGTH=1376
          Length = 1376

 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 67/217 (30%), Positives = 108/217 (49%), Gaps = 27/217 (12%)

Query: 3   GKRVDYSGRSVIVVGPSLSLHRCGLPREIA-------------IELFQIFVIRGLIRQHL 49
           GKRV+++GR+VI   P+L +   G+P  +A             IE  +  V  G  +   
Sbjct: 359 GKRVEFTGRTVISPDPNLKITEVGIPILMAQILTFPECVSRHNIEKLRQCVRNGPNKYPG 418

Query: 50  ASN-----------IGVAKSKIREKEPIVWEILQEVMQGHPVLLNRAPTLHRLGIQAFQP 98
           A N           +G  + +I ++  I   + + + +G  VL NR P+LHR+ I   + 
Sbjct: 419 ARNVRYPDGSSRTLVGDYRKRIADELAIGCIVDRHLQEGDVVLFNRQPSLHRMSIMCHRA 478

Query: 99  ILVEGRAICLHPLVCKGFNADFDGDQMAVHVPLSLEAQTEARLLMFSHMNLLSPAIGDPI 158
            ++  R +  +  VC  +NADFDGD+M +HVP + EA+TEA  LM    NL +P  G+ +
Sbjct: 479 RIMPWRTLRFNESVCNPYNADFDGDEMNMHVPQTEEARTEAITLMGVQNNLCTPKNGEIL 538

Query: 159 SVPTQDMLIGLYVLTSGNRRGICANRALLSSLVAESG 195
              TQD L   +++T   R+    +RA  S + +  G
Sbjct: 539 VASTQDFLTSSFLIT---RKDTFYDRAAFSLICSYMG 572


>AT5G60040.2 | Symbols: NRPC1 | nuclear RNA polymerase C1 |
           chr5:24173590-24183269 FORWARD LENGTH=1391
          Length = 1391

 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 67/217 (30%), Positives = 108/217 (49%), Gaps = 27/217 (12%)

Query: 3   GKRVDYSGRSVIVVGPSLSLHRCGLPREIA-------------IELFQIFVIRGLIRQHL 49
           GKRV+++GR+VI   P+L +   G+P  +A             IE  +  V  G  +   
Sbjct: 369 GKRVEFTGRTVISPDPNLKITEVGIPILMAQILTFPECVSRHNIEKLRQCVRNGPNKYPG 428

Query: 50  ASN-----------IGVAKSKIREKEPIVWEILQEVMQGHPVLLNRAPTLHRLGIQAFQP 98
           A N           +G  + +I ++  I   + + + +G  VL NR P+LHR+ I   + 
Sbjct: 429 ARNVRYPDGSSRTLVGDYRKRIADELAIGCIVDRHLQEGDVVLFNRQPSLHRMSIMCHRA 488

Query: 99  ILVEGRAICLHPLVCKGFNADFDGDQMAVHVPLSLEAQTEARLLMFSHMNLLSPAIGDPI 158
            ++  R +  +  VC  +NADFDGD+M +HVP + EA+TEA  LM    NL +P  G+ +
Sbjct: 489 RIMPWRTLRFNESVCNPYNADFDGDEMNMHVPQTEEARTEAITLMGVQNNLCTPKNGEIL 548

Query: 159 SVPTQDMLIGLYVLTSGNRRGICANRALLSSLVAESG 195
              TQD L   +++T   R+    +RA  S + +  G
Sbjct: 549 VASTQDFLTSSFLIT---RKDTFYDRAAFSLICSYMG 582


>AT4G35800.1 | Symbols: NRPB1, RPB1, RNA_POL_II_LSRNA_POL_II_LS,
           RNA_POL_II_LS | RNA polymerase II large subunit |
           chr4:16961115-16967892 REVERSE LENGTH=1839
          Length = 1839

 Score = 82.4 bits (202), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 57/199 (28%), Positives = 94/199 (47%), Gaps = 26/199 (13%)

Query: 1   MLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIEL--------FQIFVIRGLIR--QHLA 50
           ++GKRVD+S R+VI   P++++   G+P  IA+ L        + I  ++ L+    H  
Sbjct: 351 LMGKRVDFSARTVITPDPTINIDELGVPWSIALNLTYPETVTPYNIERLKELVDYGPHPP 410

Query: 51  SNIGVAKSKIREKE----------------PIVWEILQEVMQGHPVLLNRAPTLHRLGIQ 94
                AK  IR+                   + +++ + +  G  VL NR P+LH++ I 
Sbjct: 411 PGKTGAKYIIRDDGQRLDLRYLKKSSDQHLELGYKVERHLQDGDFVLFNRQPSLHKMSIM 470

Query: 95  AFQPILVEGRAICLHPLVCKGFNADFDGDQMAVHVPLSLEAQTEARLLMFSHMNLLSPAI 154
             +  ++      L+  V   +NADFDGD+M +HVP S E + E   LM     ++SP  
Sbjct: 471 GHRIRIMPYSTFRLNLSVTSPYNADFDGDEMNMHVPQSFETRAEVLELMMVPKCIVSPQA 530

Query: 155 GDPISVPTQDMLIGLYVLT 173
             P+    QD L+G   +T
Sbjct: 531 NRPVMGIVQDTLLGCRKIT 549


>AT1G63020.2 | Symbols: NRPD1A | nuclear RNA polymerase D1A |
           chr1:23355329-23361126 REVERSE LENGTH=1453
          Length = 1453

 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 57/206 (27%), Positives = 98/206 (47%), Gaps = 18/206 (8%)

Query: 1   MLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQIFVIRGLIRQHLASN-----IGV 55
           +LGKR D++ R+V+V  PSL L+  G+P  IA  L     +    ++ L ++     +  
Sbjct: 313 LLGKRSDHTFRTVVVGDPSLKLNEIGIPESIAKRLQVSEHLNQCNKERLVTSFVPTLLDN 372

Query: 56  AKSKIREKEPIVW----------EILQEVMQGHPVLLNRAPTLHRLGIQAFQ-PILVEGR 104
            +  +R  + +V           +I + +M G  VL+NR P++H+  + A    IL    
Sbjct: 373 KEMHVRRGDRLVAIQVNDLQTGDKIFRSLMDGDTVLMNRPPSIHQHSLIAMTVRILPTTS 432

Query: 105 AICLHPLVCKGFNADFDGDQMAVHVPLSLEAQTEARLLMFSHMNLLSPAIGDPISVPTQD 164
            + L+P+ C  F  DFDGD +  +VP S++A+ E   L+     L++   G  +    QD
Sbjct: 433 VVSLNPICCLPFRGDFDGDCLHGYVPQSIQAKVELDELVALDKQLINRQNGRNLLSLGQD 492

Query: 165 MLIGLYVLTSGNRRGICANRALLSSL 190
            L   Y++     +    NRA +  L
Sbjct: 493 SLTAAYLVNV--EKNCYLNRAQMQQL 516


>AT1G63020.1 | Symbols: NRPD1A, POL IVA, SDE4, NRPD1, SMD2 | nuclear
           RNA polymerase D1A | chr1:23355329-23361126 REVERSE
           LENGTH=1453
          Length = 1453

 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 57/206 (27%), Positives = 98/206 (47%), Gaps = 18/206 (8%)

Query: 1   MLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQIFVIRGLIRQHLASN-----IGV 55
           +LGKR D++ R+V+V  PSL L+  G+P  IA  L     +    ++ L ++     +  
Sbjct: 313 LLGKRSDHTFRTVVVGDPSLKLNEIGIPESIAKRLQVSEHLNQCNKERLVTSFVPTLLDN 372

Query: 56  AKSKIREKEPIVW----------EILQEVMQGHPVLLNRAPTLHRLGIQAFQ-PILVEGR 104
            +  +R  + +V           +I + +M G  VL+NR P++H+  + A    IL    
Sbjct: 373 KEMHVRRGDRLVAIQVNDLQTGDKIFRSLMDGDTVLMNRPPSIHQHSLIAMTVRILPTTS 432

Query: 105 AICLHPLVCKGFNADFDGDQMAVHVPLSLEAQTEARLLMFSHMNLLSPAIGDPISVPTQD 164
            + L+P+ C  F  DFDGD +  +VP S++A+ E   L+     L++   G  +    QD
Sbjct: 433 VVSLNPICCLPFRGDFDGDCLHGYVPQSIQAKVELDELVALDKQLINRQNGRNLLSLGQD 492

Query: 165 MLIGLYVLTSGNRRGICANRALLSSL 190
            L   Y++     +    NRA +  L
Sbjct: 493 SLTAAYLVNV--EKNCYLNRAQMQQL 516


>AT3G57660.1 | Symbols: NRPA1 | nuclear RNA polymerase A1 |
           chr3:21353746-21362814 FORWARD LENGTH=1670
          Length = 1670

 Score = 69.3 bits (168), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 61/239 (25%), Positives = 112/239 (46%), Gaps = 48/239 (20%)

Query: 1   MLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIEL-------------FQIFVIRG---- 43
           M+GKRV+++ RSVI   P ++++  G+P   A++L              +  +I G    
Sbjct: 441 MMGKRVNHACRSVISPDPYIAVNDIGIPPCFALKLTYPERVTPWNVEKLREAIINGPDIH 500

Query: 44  -----------------------LIRQHLASNIGVAKSKIREKEPIVWE---ILQEVMQG 77
                                   I + L S+ G A +++ +   I +E   + + +  G
Sbjct: 501 PGATHYSDKSSTMKLPSTEKARRAIARKLLSSRG-ATTELGKTCDINFEGKTVHRHMRDG 559

Query: 78  HPVLLNRAPTLHRLGIQAFQPILVEG-RAICLHPLVCKGFNADFDGDQMAVHVPLSLEAQ 136
             VL+NR PTLH+  + A +  +++G + + LH   C  +NADFDGD+M VH P    ++
Sbjct: 560 DIVLVNRQPTLHKPSLMAHKVRVLKGEKTLRLHYANCSTYNADFDGDEMNVHFPQDEISR 619

Query: 137 TEARLLMFSHMNLLSPAIGDPISVPTQDMLIGLYVLTSGNRRGICANRALLSSLVAESG 195
            EA  ++ ++     P+ G+P+    QD ++   +LT   +R    ++   + L+  SG
Sbjct: 620 AEAYNIVNANNQYARPSNGEPLRALIQDHIVSSVLLT---KRDTFLDKDHFNQLLFSSG 675


>AT2G40030.1 | Symbols: NRPD1B, DRD3, ATNRPD1B, DMS5, NRPE1 |
           nuclear RNA polymerase D1B | chr2:16715089-16723406
           FORWARD LENGTH=1976
          Length = 1976

 Score = 64.7 bits (156), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 36/101 (35%), Positives = 52/101 (51%)

Query: 72  QEVMQGHPVLLNRAPTLHRLGIQAFQPILVEGRAICLHPLVCKGFNADFDGDQMAVHVPL 131
           + VM G  V +NR PT H+  +QA +  + E   + ++PL+C   +ADFDGD + +  P 
Sbjct: 402 RRVMDGDVVFINRPPTTHKHSLQALRVYVHEDNTVKINPLMCSPLSADFDGDCVHLFYPQ 461

Query: 132 SLEAQTEARLLMFSHMNLLSPAIGDPISVPTQDMLIGLYVL 172
           SL A+ E   L      LLS   G  I     D L+ L V+
Sbjct: 462 SLSAKAEVMELFSVEKQLLSSHTGQLILQMGSDSLLSLRVM 502