Miyakogusa Predicted Gene
- Lj0g3v0236409.1
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= Lj0g3v0236409.1 tr|G7LG09|G7LG09_MEDTR DNA-directed RNA
polymerase OS=Medicago truncatula GN=MTR_8g038990 PE=3
SV=1,85.68,0,DNA-DIRECTED RNA POLYMERASE,NULL; beta and beta-prime
subunits of DNA dependent RNA-polymerase,NULL;,CUFF.15483.1
(435 letters)
Database: TAIR10_pep
35,386 sequences; 14,482,855 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
AT2G40030.1 | Symbols: NRPD1B, DRD3, ATNRPD1B, DMS5, NRPE1 | nuc... 548 e-156
AT1G63020.2 | Symbols: NRPD1A | nuclear RNA polymerase D1A | chr... 157 1e-38
AT1G63020.1 | Symbols: NRPD1A, POL IVA, SDE4, NRPD1, SMD2 | nucl... 157 1e-38
AT4G35800.1 | Symbols: NRPB1, RPB1, RNA_POL_II_LSRNA_POL_II_LS, ... 120 3e-27
AT5G60040.2 | Symbols: NRPC1 | nuclear RNA polymerase C1 | chr5:... 110 2e-24
AT5G60040.1 | Symbols: NRPC1 | nuclear RNA polymerase C1 | chr5:... 110 2e-24
AT3G57660.1 | Symbols: NRPA1 | nuclear RNA polymerase A1 | chr3:... 91 1e-18
ATCG00180.1 | Symbols: RPOC1 | DNA-directed RNA polymerase famil... 74 2e-13
>AT2G40030.1 | Symbols: NRPD1B, DRD3, ATNRPD1B, DMS5, NRPE1 |
nuclear RNA polymerase D1B | chr2:16715089-16723406
FORWARD LENGTH=1976
Length = 1976
Score = 548 bits (1413), Expect = e-156, Method: Compositional matrix adjust.
Identities = 266/436 (61%), Positives = 342/436 (78%), Gaps = 3/436 (0%)
Query: 1 MSSDPSMTFLRKLLRKVEIIRSSRSGEPNFESHEVEANDLQSVVDQYLQIRGCAKPARDI 60
MS DPS L+ +L+KV I+SSRSGE NFESH+ EA+++ VVD YLQ+RG AK AR+I
Sbjct: 230 MSVDPSRIELKDVLKKVIAIKSSRSGETNFESHKAEASEMFRVVDTYLQVRGTAKAARNI 289
Query: 61 ETHFGVNKELSDASNKAWLDKMKSLFISKGSGFSSRSVITGDGYKRINEVGIPLEIAQRI 120
+ +GV+K +S+KAW +KM++LFI KGSGFSSRSVITGD Y+ +NEVGIP+EIAQRI
Sbjct: 290 DMRYGVSKISDSSSSKAWTEKMRTLFIRKGSGFSSRSVITGDAYRHVNEVGIPIEIAQRI 349
Query: 121 TFEERVNLHNMCFLQKLVDENLCLAYKEGVSTYSLREGSKGHTYLKPGQIVHRRIMDGDI 180
TFEERV++HN +LQKLVD+ LCL+Y +G +TYSLR+GSKGHT LKPGQ+VHRR+MDGD+
Sbjct: 350 TFEERVSVHNRGYLQKLVDDKLCLSYTQGSTTYSLRDGSKGHTELKPGQVVHRRVMDGDV 409
Query: 181 VFINRPPTTHKHSLQALVVYIHDDHTVKINPLICGPLGADFDGDCVHLFYPQSLAAKAEV 240
VFINRPPTTHKHSLQAL VY+H+D+TVKINPL+C PL ADFDGDCVHLFYPQSL+AKAEV
Sbjct: 410 VFINRPPTTHKHSLQALRVYVHEDNTVKINPLMCSPLSADFDGDCVHLFYPQSLSAKAEV 469
Query: 241 VELFSVEKQLLSSHSGNLNLQLSTDSLLSLKMLVKKGFMDRAAANQLAMFLSLPLPRPAL 300
+ELFSVEKQLLSSH+G L LQ+ +DSLLSL++++++ F+D+A A QLAM+ SL LP PAL
Sbjct: 470 MELFSVEKQLLSSHTGQLILQMGSDSLLSLRVMLERVFLDKATAQQLAMYGSLSLPPPAL 529
Query: 301 LKAGSGDSYWTSIQILQCALPLSFDCTGGRYLIRQSDILEFDLSRDVLPAVINEIAASVF 360
K+ WT QILQ A P C G R+L+ SD+L+FD D + ++INEI S+F
Sbjct: 530 RKSSKSGPAWTVFQILQLAFPERLSCKGDRFLVDGSDLLKFDFGVDAMGSIINEIVTSIF 589
Query: 361 FGKGPQEALNFFDVLQPVLMESIFSNGFSVGLHDFSISGA-VKRVTDRNIGKVSPLLYQL 419
KGP+E L FFD LQP+LMES+F+ GFS+ L D S+S A + + + I ++SP++ +L
Sbjct: 590 LEKGPKETLGFFDSLQPLLMESLFAEGFSLSLEDLSMSRADMDVIHNLIIREISPMVSRL 649
Query: 420 RFIYNELVAQQLEKHM 435
R Y + + QLE +
Sbjct: 650 RLSYRDEL--QLENSI 663
>AT1G63020.2 | Symbols: NRPD1A | nuclear RNA polymerase D1A |
chr1:23355329-23361126 REVERSE LENGTH=1453
Length = 1453
Score = 157 bits (398), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 112/341 (32%), Positives = 171/341 (50%), Gaps = 21/341 (6%)
Query: 71 SDASNKAWLDKMKSLFISKGSGFSSRSVITGDGYKRINEVGIPLEIAQRITFEERVNLHN 130
SD L MK + + K S + R+V+ GD ++NE+GIP IA+R+ E +N N
Sbjct: 298 SDTPKLCGLRFMKDVLLGKRSDHTFRTVVVGDPSLKLNEIGIPESIAKRLQVSEHLNQCN 357
Query: 131 -----MCFLQKLVDENLCLAYKEGVSTYSLREGSKGHTYLKPGQIVHRRIMDGDIVFINR 185
F+ L+D N + + G +++ L+ G + R +MDGD V +NR
Sbjct: 358 KERLVTSFVPTLLD-NKEMHVRRGDRLVAIQVND-----LQTGDKIFRSLMDGDTVLMNR 411
Query: 186 PPTTHKHSLQALVVYI-HDDHTVKINPLICGPLGADFDGDCVHLFYPQSLAAKAEVVELF 244
PP+ H+HSL A+ V I V +NP+ C P DFDGDC+H + PQS+ AK E+ EL
Sbjct: 412 PPSIHQHSLIAMTVRILPTTSVVSLNPICCLPFRGDFDGDCLHGYVPQSIQAKVELDELV 471
Query: 245 SVEKQLLSSHSGNLNLQLSTDSLLS--LKMLVKKGFMDRAAANQLAMFLSLPLPRPALLK 302
+++KQL++ +G L L DSL + L + K +++RA QL M+ LP PA++K
Sbjct: 472 ALDKQLINRQNGRNLLSLGQDSLTAAYLVNVEKNCYLNRAQMQQLQMYCPFQLPPPAIIK 531
Query: 303 A--GSGDSYWTSIQILQCALPLSFDCTG--GRYLIRQSDILEFDLSRDVL-PAVINEIAA 357
A S + WT +Q+ P FD T ++ ++L F L N I
Sbjct: 532 ASPSSTEPQWTGMQLFGMLFPPGFDYTYPLNNVVVSNGELLSFSEGSAWLRDGEGNFIER 591
Query: 358 SVFFGKGPQEALNFFDVLQPVLMESIFSNGFSVGLHDFSIS 398
+ KG + L+ Q +L + + G SV L D +S
Sbjct: 592 LLKHDKG--KVLDIIYSAQEMLSQWLLMRGLSVSLADLYLS 630
>AT1G63020.1 | Symbols: NRPD1A, POL IVA, SDE4, NRPD1, SMD2 | nuclear
RNA polymerase D1A | chr1:23355329-23361126 REVERSE
LENGTH=1453
Length = 1453
Score = 157 bits (398), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 112/341 (32%), Positives = 171/341 (50%), Gaps = 21/341 (6%)
Query: 71 SDASNKAWLDKMKSLFISKGSGFSSRSVITGDGYKRINEVGIPLEIAQRITFEERVNLHN 130
SD L MK + + K S + R+V+ GD ++NE+GIP IA+R+ E +N N
Sbjct: 298 SDTPKLCGLRFMKDVLLGKRSDHTFRTVVVGDPSLKLNEIGIPESIAKRLQVSEHLNQCN 357
Query: 131 -----MCFLQKLVDENLCLAYKEGVSTYSLREGSKGHTYLKPGQIVHRRIMDGDIVFINR 185
F+ L+D N + + G +++ L+ G + R +MDGD V +NR
Sbjct: 358 KERLVTSFVPTLLD-NKEMHVRRGDRLVAIQVND-----LQTGDKIFRSLMDGDTVLMNR 411
Query: 186 PPTTHKHSLQALVVYI-HDDHTVKINPLICGPLGADFDGDCVHLFYPQSLAAKAEVVELF 244
PP+ H+HSL A+ V I V +NP+ C P DFDGDC+H + PQS+ AK E+ EL
Sbjct: 412 PPSIHQHSLIAMTVRILPTTSVVSLNPICCLPFRGDFDGDCLHGYVPQSIQAKVELDELV 471
Query: 245 SVEKQLLSSHSGNLNLQLSTDSLLS--LKMLVKKGFMDRAAANQLAMFLSLPLPRPALLK 302
+++KQL++ +G L L DSL + L + K +++RA QL M+ LP PA++K
Sbjct: 472 ALDKQLINRQNGRNLLSLGQDSLTAAYLVNVEKNCYLNRAQMQQLQMYCPFQLPPPAIIK 531
Query: 303 A--GSGDSYWTSIQILQCALPLSFDCTG--GRYLIRQSDILEFDLSRDVL-PAVINEIAA 357
A S + WT +Q+ P FD T ++ ++L F L N I
Sbjct: 532 ASPSSTEPQWTGMQLFGMLFPPGFDYTYPLNNVVVSNGELLSFSEGSAWLRDGEGNFIER 591
Query: 358 SVFFGKGPQEALNFFDVLQPVLMESIFSNGFSVGLHDFSIS 398
+ KG + L+ Q +L + + G SV L D +S
Sbjct: 592 LLKHDKG--KVLDIIYSAQEMLSQWLLMRGLSVSLADLYLS 630
>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 = 120 bits (300), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 92/350 (26%), Positives = 158/350 (45%), Gaps = 34/350 (9%)
Query: 76 KAWLDKMKSLFISKGSGFSSRSVITGDGYKRINEVGIPLEIAQRITFEERVNLHNMCFLQ 135
KA +++ + K FS+R+VIT D I+E+G+P IA +T+ E V +N+ L+
Sbjct: 341 KAKEGRIRGNLMGKRVDFSARTVITPDPTINIDELGVPWSIALNLTYPETVTPYNIERLK 400
Query: 136 KLVDENLCLAYKEGVSTYSLREGSK----------GHTYLKPGQIVHRRIMDGDIVFINR 185
+LVD + + Y +R+ + +L+ G V R + DGD V NR
Sbjct: 401 ELVDYGPHPPPGKTGAKYIIRDDGQRLDLRYLKKSSDQHLELGYKVERHLQDGDFVLFNR 460
Query: 186 PPTTHKHSLQALVVYIHDDHTVKINPLICGPLGADFDGDCVHLFYPQSLAAKAEVVELFS 245
P+ HK S+ + I T ++N + P ADFDGD +++ PQS +AEV+EL
Sbjct: 461 QPSLHKMSIMGHRIRIMPYSTFRLNLSVTSPYNADFDGDEMNMHVPQSFETRAEVLELMM 520
Query: 246 VEKQLLSSHSGNLNLQLSTDSLLSLKMLVKKG-FMDRAAANQLAMF---LSLPLPRPALL 301
V K ++S + + + D+LL + + K+ F+++ M+ +P PA+L
Sbjct: 521 VPKCIVSPQANRPVMGIVQDTLLGCRKITKRDTFIEKDVFMNTLMWWEDFDGKVPAPAIL 580
Query: 302 KAGSGDSYWTSIQILQCALPLSFD---------------CTGGRYLIR--QSDILEFDLS 344
K WT Q+ +P + T G +R + ++L L
Sbjct: 581 KP---RPLWTGKQVFNLIIPKQINLLRYSAWHADTETGFITPGDTQVRIERGELLAGTLC 637
Query: 345 RDVLPAVINEIAASVFFGKGPQEALNFFDVLQPVLMESIFSNGFSVGLHD 394
+ L + ++ GP A F Q ++ + NGF++G+ D
Sbjct: 638 KKTLGTSNGSLVHVIWEEVGPDAARKFLGHTQWLVNYWLLQNGFTIGIGD 687
>AT5G60040.2 | Symbols: NRPC1 | nuclear RNA polymerase C1 |
chr5:24173590-24183269 FORWARD LENGTH=1391
Length = 1391
Score = 110 bits (276), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 78/246 (31%), Positives = 122/246 (49%), Gaps = 25/246 (10%)
Query: 93 FSSRSVITGDGYKRINEVGIPLEIAQRITFEERVNLHNMCFLQKLVDEN-------LCLA 145
F+ R+VI+ D +I EVGIP+ +AQ +TF E V+ HN+ L++ V +
Sbjct: 374 FTGRTVISPDPNLKITEVGIPILMAQILTFPECVSRHNIEKLRQCVRNGPNKYPGARNVR 433
Query: 146 YKEG-----VSTYSLREGSKGHTYLKPGQIVHRRIMDGDIVFINRPPTTHKHSLQALVVY 200
Y +G V Y R + L G IV R + +GD+V NR P+ H+ S+
Sbjct: 434 YPDGSSRTLVGDYRKRIADE----LAIGCIVDRHLQEGDVVLFNRQPSLHRMSIMCHRAR 489
Query: 201 IHDDHTVKINPLICGPLGADFDGDCVHLFYPQSLAAKAEVVELFSVEKQLLSSHSGNLNL 260
I T++ N +C P ADFDGD +++ PQ+ A+ E + L V+ L + +G + +
Sbjct: 490 IMPWRTLRFNESVCNPYNADFDGDEMNMHVPQTEEARTEAITLMGVQNNLCTPKNGEILV 549
Query: 261 QLSTDSLLSLKMLVKK-GFMDRAAANQLAMFL-----SLPLPRPALLKAGSGDSYWTSIQ 314
+ D L S ++ +K F DRAA + + ++ S+ LP P +LK WT Q
Sbjct: 550 ASTQDFLTSSFLITRKDTFYDRAAFSLICSYMGDGMDSIDLPTPTILKP---IELWTGKQ 606
Query: 315 ILQCAL 320
I L
Sbjct: 607 IFSVLL 612
>AT5G60040.1 | Symbols: NRPC1 | nuclear RNA polymerase C1 |
chr5:24173590-24183269 FORWARD LENGTH=1376
Length = 1376
Score = 110 bits (276), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 78/246 (31%), Positives = 122/246 (49%), Gaps = 25/246 (10%)
Query: 93 FSSRSVITGDGYKRINEVGIPLEIAQRITFEERVNLHNMCFLQKLVDEN-------LCLA 145
F+ R+VI+ D +I EVGIP+ +AQ +TF E V+ HN+ L++ V +
Sbjct: 364 FTGRTVISPDPNLKITEVGIPILMAQILTFPECVSRHNIEKLRQCVRNGPNKYPGARNVR 423
Query: 146 YKEG-----VSTYSLREGSKGHTYLKPGQIVHRRIMDGDIVFINRPPTTHKHSLQALVVY 200
Y +G V Y R + L G IV R + +GD+V NR P+ H+ S+
Sbjct: 424 YPDGSSRTLVGDYRKRIADE----LAIGCIVDRHLQEGDVVLFNRQPSLHRMSIMCHRAR 479
Query: 201 IHDDHTVKINPLICGPLGADFDGDCVHLFYPQSLAAKAEVVELFSVEKQLLSSHSGNLNL 260
I T++ N +C P ADFDGD +++ PQ+ A+ E + L V+ L + +G + +
Sbjct: 480 IMPWRTLRFNESVCNPYNADFDGDEMNMHVPQTEEARTEAITLMGVQNNLCTPKNGEILV 539
Query: 261 QLSTDSLLSLKMLVKKG-FMDRAAANQLAMFL-----SLPLPRPALLKAGSGDSYWTSIQ 314
+ D L S ++ +K F DRAA + + ++ S+ LP P +LK WT Q
Sbjct: 540 ASTQDFLTSSFLITRKDTFYDRAAFSLICSYMGDGMDSIDLPTPTILKP---IELWTGKQ 596
Query: 315 ILQCAL 320
I L
Sbjct: 597 IFSVLL 602
>AT3G57660.1 | Symbols: NRPA1 | nuclear RNA polymerase A1 |
chr3:21353746-21362814 FORWARD LENGTH=1670
Length = 1670
Score = 91.3 bits (225), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 71/241 (29%), Positives = 111/241 (46%), Gaps = 32/241 (13%)
Query: 79 LDKMKSLFISKGSG----FSSRSVITGDGYKRINEVGIPLEIAQRITFEERVNLHNMCFL 134
L+K + LF K G + RSVI+ D Y +N++GIP A ++T+ ERV N+ L
Sbjct: 430 LEKKEGLFRQKMMGKRVNHACRSVISPDPYIAVNDIGIPPCFALKLTYPERVTPWNVEKL 489
Query: 135 QKLVDENL-----CLAYKEGVSTYSLREGSKGHTYLK---------------------PG 168
++ + Y + ST L K + G
Sbjct: 490 REAIINGPDIHPGATHYSDKSSTMKLPSTEKARRAIARKLLSSRGATTELGKTCDINFEG 549
Query: 169 QIVHRRIMDGDIVFINRPPTTHKHSLQALVVYI-HDDHTVKINPLICGPLGADFDGDCVH 227
+ VHR + DGDIV +NR PT HK SL A V + + T++++ C ADFDGD ++
Sbjct: 550 KTVHRHMRDGDIVLVNRQPTLHKPSLMAHKVRVLKGEKTLRLHYANCSTYNADFDGDEMN 609
Query: 228 LFYPQSLAAKAEVVELFSVEKQLLSSHSGNLNLQLSTDSLLSLKMLVKKG-FMDRAAANQ 286
+ +PQ ++AE + + Q +G L D ++S +L K+ F+D+ NQ
Sbjct: 610 VHFPQDEISRAEAYNIVNANNQYARPSNGEPLRALIQDHIVSSVLLTKRDTFLDKDHFNQ 669
Query: 287 L 287
L
Sbjct: 670 L 670
>ATCG00180.1 | Symbols: RPOC1 | DNA-directed RNA polymerase family
protein | chrC:20251-23084 REVERSE LENGTH=680
Length = 680
Score = 74.3 bits (181), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 82/281 (29%), Positives = 127/281 (45%), Gaps = 32/281 (11%)
Query: 1 MSSDPSMTFLRKLLRK---VEIIRSSRSGEPNFESHEVEANDLQSVVDQYLQ--IRGCAK 55
MSSD + + R + R +++ +SRS P E + +Q VD L IRG +
Sbjct: 288 MSSDINELYRRVIYRNNTLTDLLTTSRS-TPG-ELVMCQEKLVQEAVDTLLDNGIRG--Q 343
Query: 56 PARDIETHFGVNKELSDASNKAWLDKMKSLFISKGSGFSSRSVITGDGYKRINEVGIPLE 115
P RD H V K SD + + + K +S RSVI ++ G+P E
Sbjct: 344 PMRD--GHNKVYKSFSDVIEGK-EGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPRE 400
Query: 116 IAQRITFEERVNLHNMCFLQKLVDENLCLAYKEGVSTYSLREGSKGHTYLKP--GQIVHR 173
IA + L ++ L+ ++L A GV+ +RE KP +I+
Sbjct: 401 IA--------IELFQTFVIRGLIRQHL--ASNIGVAKSQIREK-------KPIVWEILQE 443
Query: 174 RIMDGDIVFINRPPTTHKHSLQALVVYIHDDHTVKINPLICGPLGADFDGDCVHLFYPQS 233
+M G V +NR PT H+ +Q+ + + T+ ++PL+C ADFDGD + + P S
Sbjct: 444 -VMQGHPVLLNRAPTLHRLGIQSFQPILVEGRTICLHPLVCKGFNADFDGDQMAVHVPLS 502
Query: 234 LAAKAEVVELFSVEKQLLSSHSGNLNLQLSTDSLLSLKMLV 274
L A+AE L LLS G+ + D L+ L +L
Sbjct: 503 LEAQAEARLLMFSHMNLLSPAIGDPISVPTQDMLIGLYVLT 543