Miyakogusa Predicted Gene
- Lj0g3v0092909.1
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= Lj0g3v0092909.1 tr|G7LG09|G7LG09_MEDTR DNA-directed RNA
polymerase OS=Medicago truncatula GN=MTR_8g038990 PE=3
SV=1,68.75,0,RNA_pol_Rpb1_2,RNA polymerase, alpha subunit;
RNA_pol_Rpb1_5,RNA polymerase Rpb1, domain 5; RNA_pol_,CUFF.5297.1
(1584 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... 1481 0.0
AT1G63020.2 | Symbols: NRPD1A | nuclear RNA polymerase D1A | chr... 316 7e-86
AT1G63020.1 | Symbols: NRPD1A, POL IVA, SDE4, NRPD1, SMD2 | nucl... 316 7e-86
AT4G35800.1 | Symbols: NRPB1, RPB1, RNA_POL_II_LSRNA_POL_II_LS, ... 161 4e-39
AT5G60040.1 | Symbols: NRPC1 | nuclear RNA polymerase C1 | chr5:... 140 6e-33
AT5G60040.2 | Symbols: NRPC1 | nuclear RNA polymerase C1 | chr5:... 110 6e-24
AT3G57660.1 | Symbols: NRPA1 | nuclear RNA polymerase A1 | chr3:... 82 2e-15
ATCG00180.1 | Symbols: RPOC1 | DNA-directed RNA polymerase famil... 70 1e-11
>AT2G40030.1 | Symbols: NRPD1B, DRD3, ATNRPD1B, DMS5, NRPE1 | nuclear
RNA polymerase D1B | chr2:16715089-16723406 FORWARD
LENGTH=1976
Length = 1976
Score = 1481 bits (3835), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 795/1610 (49%), Positives = 1059/1610 (65%), Gaps = 79/1610 (4%)
Query: 1 MEENPTLSFLDGNVVGIQFGMATRQEICTXXXXXXXXXXXXXXXNPFLGLPLEYGRCESC 60
MEE T LDG +VGI F +A+ EIC N FLGLPLE+G+CESC
Sbjct: 1 MEEESTSEILDGEIVGITFALASHHEICIQSISESAINHPSQLTNAFLGLPLEFGKCESC 60
Query: 61 GTSEAGKCEGHFGYIELPVPIYHPSHVSELKKMLSLVCLNCLKMKKTKFPSSSSGLAQRL 120
G +E KCEGHFGYI+LPVPIYHP+HV+ELK+MLSL+CL CLK+KK K +S GLA RL
Sbjct: 61 GATEPDKCEGHFGYIQLPVPIYHPAHVNELKQMLSLLCLKCLKIKKAK--GTSGGLADRL 118
Query: 121 LSPCCQEPNAAQVSIREVKTGDGACYLVLKV-SKSKMQDGFWRFLDKYGYRYEVDHTRAL 179
L CC+E A+Q+SI++ + DGA YL LK+ S+S++Q G W FL++YGYRY D+TR L
Sbjct: 119 LGVCCEE--ASQISIKD-RASDGASYLELKLPSRSRLQPGCWNFLERYGYRYGSDYTRPL 175
Query: 180 LPCEVMEMIKRFPLETKKKLAGKGYFPQDGYVIKYLPVPPNCLXXXXXXXXXXXXXXXXX 239
L EV E+++R P E++KKL KG+ PQ+GY+++YLPVPPNCL
Sbjct: 176 LAREVKEILRRIPEESRKKLTAKGHIPQEGYILEYLPVPPNCLSVPEASDGFSTMSVDPS 235
Query: 240 XTFLRKLLRKVEVIRSSRSGEPNFESHQVEANDLQSVVDQYLQIRGCAKPARDIETHFGV 299
L+ +L+KV I+SSRSGE NFESH+ EA+++ VVD YLQ+RG AK AR+I+ +GV
Sbjct: 236 RIELKDVLKKVIAIKSSRSGETNFESHKAEASEMFRVVDTYLQVRGTAKAARNIDMRYGV 295
Query: 300 NKELSDASNKAWLDKMKSLFISKGSGFSSRSVITGDGYKRINEVGIPHEIAQRITFEERV 359
+K +S+KAW +KM++LFI KGSGFSSRSVITGD Y+ +NEVGIP EIAQRITFEERV
Sbjct: 296 SKISDSSSSKAWTEKMRTLFIRKGSGFSSRSVITGDAYRHVNEVGIPIEIAQRITFEERV 355
Query: 360 NSHNMCYLQKLVDENLCLAYKEGVSTYSLREGSKGHTYLKPGQIVHRRIMDGDIVFINRP 419
+ HN YLQKLVD+ LCL+Y +G +TYSLR+GSKGHT LKPGQ+VHRR+MDGD+VFINRP
Sbjct: 356 SVHNRGYLQKLVDDKLCLSYTQGSTTYSLRDGSKGHTELKPGQVVHRRVMDGDVVFINRP 415
Query: 420 PTTHKHSLQALVVYIHDDHTVKINPLICGPLGADFDGDCVHLFYPQSLAAKAEVVELFSV 479
PTTHKHSLQAL VY+H+D+TVKINPL+C PL ADFDGDCVHLFYPQSL+AKAEV+ELFSV
Sbjct: 416 PTTHKHSLQALRVYVHEDNTVKINPLMCSPLSADFDGDCVHLFYPQSLSAKAEVMELFSV 475
Query: 480 EKQLLSSHXXXXXXXXXXXXXXXXXXXVKKGFMDRAAANQMAMFLSLPLPQPALLKAGSG 539
EKQLLSSH +++ F+D+A A Q+AM+ SL LP PAL K+
Sbjct: 476 EKQLLSSHTGQLILQMGSDSLLSLRVMLERVFLDKATAQQLAMYGSLSLPPPALRKSSKS 535
Query: 540 DCYWTSTQILQCALPLSFDCTGGRYLIRESDILGFDLGRDVLPAVINEIAASVFFGKGPQ 599
WT QILQ A P C G R+L+ SD+L FD G D + ++INEI S+F KGP+
Sbjct: 536 GPAWTVFQILQLAFPERLSCKGDRFLVDGSDLLKFDFGVDAMGSIINEIVTSIFLEKGPK 595
Query: 600 EALNFFDVLQPFLMECIFSNGFSVGLHDFSISGA-VKRITDRNIGKVSPLLYQLRFIYNE 658
E L FFD LQP LME +F+ GFS+ L D S+S A + I + I ++SP++ +LR Y +
Sbjct: 596 ETLGFFDSLQPLLMESLFAEGFSLSLEDLSMSRADMDVIHNLIIREISPMVSRLRLSYRD 655
Query: 659 LVAQQLEKHMQDIELPAIKFASKSSRLGDMIDSKSKSALDKVTQQIGFLGQQLFVRGRLY 718
+ QLE + ++ A F KS + ++ID KS SA+ K+ QQ GFLG QL + + Y
Sbjct: 656 EL--QLENSIHKVKEVAANFMLKSYSIRNLIDIKSNSAITKLVQQTGFLGLQLSDKKKFY 713
Query: 719 SKGLLEDVASHFKLKCDYDGDGYPSAEYGLLKGCFFHGLDPFEELVHSISTREIMVRSSR 778
+K L+ED+A K K G S ++G++KGCFFHGLDP+EE+ HSI+ RE++VRSSR
Sbjct: 714 TKTLVEDMAIFCKRKY---GRISSSGDFGIVKGCFFHGLDPYEEMAHSIAAREVIVRSSR 770
Query: 779 GLSEPGTLFKNLMAILRDVVVCYDGTVRNVCSNSIIQFEYGLKAGDNASYLFPAGEHVGV 838
GL+EPGTLFKNLMA+LRD+V+ DGTVRN CSNS+IQF+YG+ + LF AGE VGV
Sbjct: 771 GLAEPGTLFKNLMAVLRDIVITNDGTVRNTCSNSVIQFKYGVDSERGHQGLFEAGEPVGV 830
Query: 839 LAATAMSNPAYKAVLDASPSSNCSWELMKEILLCKVHFRNEPIDRRVILYLNDCDCGRSY 898
LAATAMSNPAYKAVLD+SP+SN SWELMKE+LLCKV+F+N DRRVILYLN+C CG+ +
Sbjct: 831 LAATAMSNPAYKAVLDSSPNSNSSWELMKEVLLCKVNFQNTTNDRRVILYLNECHCGKRF 890
Query: 899 CRENAAYAVKNQLRKVSLKDTAVDFIVEYQQQRK-RKGSEIDAGLVGHIHLDEVKLEELK 957
C+ENAA V+N+L KVSLKDTAV+F+VEY++Q + ID+ L GHIHL++ L++
Sbjct: 891 CQENAACTVRNKLNKVSLKDTAVEFLVEYRKQPTISEIFGIDSCLHGHIHLNKTLLQDWN 950
Query: 958 INMAEVFQRCQEKLDSF--NRKRKFNQIFKRTELFFSESCV------SPNFSAPCLTFIW 1009
I+M ++ Q+C++ ++S +K+K FKRT L SE C S PCLTF +
Sbjct: 951 ISMQDIHQKCEDVINSLGQKKKKKATDDFKRTSLSVSECCSFRDPCGSKGSDMPCLTFSY 1010
Query: 1010 PAGDGNDLHETTKILADTICPALLDTIIQGDPRINSANIIWVNPDTNTWVRNPSKSSNGE 1069
A D DL T +L +T+ P LL+ +I+GD RI SANIIW + D TW+RN S GE
Sbjct: 1011 NATD-PDLERTLDVLCNTVYPVLLEIVIKGDSRICSANIIWNSSDMTTWIRNRHASRRGE 1069
Query: 1070 LALDIILEKESIKQNGDAWRIVLDSCLPVLHLIDTRRSIPYAIKQIQELLGISCTFDQAI 1129
LD+ +EK ++KQ+GDAWR+V+DSCL VLHLIDT+RSIPY++KQ+QELLG+SC F+QA+
Sbjct: 1070 WVLDVTVEKSAVKQSGDAWRVVIDSCLSVLHLIDTKRSIPYSVKQVQELLGLSCAFEQAV 1129
Query: 1130 QRLAASVKMVAKGVLREHLILLASSMTCGGNLVGFNTGGYKALARQLNIQVPFTDATLFT 1189
QRL+ASV+MV+KGVL+EH+ILLA++MTC G ++GFN+GGYKAL R LNI+ PFT+ATL
Sbjct: 1130 QRLSASVRMVSKGVLKEHIILLANNMTCSGTMLGFNSGGYKALTRSLNIKAPFTEATLIA 1189
Query: 1190 PKRCFERAAEKCHTDSLSSIVASCSWGKPVAVGTGSKFDVLWDAKEIKSNDLDGMDVYNF 1249
P++CFE+AAEKCHTDSLS++V SCSWGK V VGTGS+F++LW+ KE +D + DVY+F
Sbjct: 1190 PRKCFEKAAEKCHTDSLSTVVGSCSWGKRVDVGTGSQFELLWNQKETGLDDKEETDVYSF 1249
Query: 1250 LHMVKSLTNGEEENNACXXXXXXXXXXXXNADYSLSPQHTSGV-DAVFEETFEAMN---- 1304
L MV S TN + A A+++ SP+ S + + FE++ + N
Sbjct: 1250 LQMVISTTNAD----AFVSSPGFDVTEEEMAEWAESPERDSALGEPKFEDSADFQNLHDE 1305
Query: 1305 -GPESNGW--GSNTDRTETNSTQW-----SAWESNKAETKDGGSQRVHEDSWTSRDVMKD 1356
P W S+ D + ++W + E+N + + ED+W+S + KD
Sbjct: 1306 GKPSGANWEKSSSWDNGCSGGSEWGVSKSTGGEANPESNWEKTTNVEKEDAWSSWNTRKD 1365
Query: 1357 DSQMTNAWDGNVEQTKTISNDWTAWGKNKSEIQDNVAEKAEGECGSSEKWKTAVIQEGSS 1416
Q + S+ AWG + + E +S K +++ E +
Sbjct: 1366 ------------AQESSKSDSGGAWGIKTKDADADTTPNWE----TSPAPKDSIVPENNE 1409
Query: 1417 -KSNAW--KSNIEQRSDEDSWTSQKLKADVIQDSSKPSSWGAKPKSN-----DSSNWGRN 1468
S+ W KS ++ D+ +W ++ A S+ + WG+ K N D++ WG
Sbjct: 1410 PTSDVWGHKSVSDKSWDKKNWGTE--SAPAAWGSTDAAVWGSSDKKNSETESDAAAWGSR 1467
Query: 1469 KDEIQDVVSRRAEDDSWSSKKQLSSDATQEDSSKFSFWGGNKDTTKPKSNDWSSWGGNRD 1528
DV S W+ K + E S + WG + D TK + W+SW ++
Sbjct: 1468 DKNNSDVGSGAGVLGPWNKK-------SSETESNGATWGSS-DKTKSGAAAWNSW--DKK 1517
Query: 1529 GIQDGGSKRAQDDSWSSQKDVTRESSSKVDAWGANNEASNPKSNDWSAWG 1578
I+ A W SQ E+ S AWGA ++ + + WG
Sbjct: 1518 NIETDSEPAA----WGSQGKKNSETESGPAAWGAWDKKKSETEPGPAGWG 1563
>AT1G63020.2 | Symbols: NRPD1A | nuclear RNA polymerase D1A |
chr1:23355329-23361126 REVERSE LENGTH=1453
Length = 1453
Score = 316 bits (810), Expect = 7e-86, Method: Compositional matrix adjust.
Identities = 277/1030 (26%), Positives = 454/1030 (44%), Gaps = 115/1030 (11%)
Query: 304 SDASNKAWLDKMKSLFISKGSGFSSRSVITGDGYKRINEVGIPHEIAQRITFEERVNSHN 363
SD L MK + + K S + R+V+ GD ++NE+GIP IA+R+ E +N N
Sbjct: 298 SDTPKLCGLRFMKDVLLGKRSDHTFRTVVVGDPSLKLNEIGIPESIAKRLQVSEHLNQCN 357
Query: 364 -----MCYLQKLVDENLCLAYKEGVSTYSLREGSKGHTYLKPGQIVHRRIMDGDIVFINR 418
++ L+D N + + G +++ L+ G + R +MDGD V +NR
Sbjct: 358 KERLVTSFVPTLLD-NKEMHVRRGDRLVAIQVND-----LQTGDKIFRSLMDGDTVLMNR 411
Query: 419 PPTTHKHSLQALVVYI-HDDHTVKINPLICGPLGADFDGDCVHLFYPQSLAAKAEVVELF 477
PP+ H+HSL A+ V I V +NP+ C P DFDGDC+H + PQS+ AK E+ EL
Sbjct: 412 PPSIHQHSLIAMTVRILPTTSVVSLNPICCLPFRGDFDGDCLHGYVPQSIQAKVELDELV 471
Query: 478 SVEKQLLSSH--XXXXXXXXXXXXXXXXXXXVKKGFMDRAAANQMAMFLSLPLPQPALLK 535
+++KQL++ K +++RA Q+ M+ LP PA++K
Sbjct: 472 ALDKQLINRQNGRNLLSLGQDSLTAAYLVNVEKNCYLNRAQMQQLQMYCPFQLPPPAIIK 531
Query: 536 AG--SGDCYWTSTQILQCALPLSFDCTG--GRYLIRESDILGFDLGRDVL-PAVINEIAA 590
A S + WT Q+ P FD T ++ ++L F G L N I
Sbjct: 532 ASPSSTEPQWTGMQLFGMLFPPGFDYTYPLNNVVVSNGELLSFSEGSAWLRDGEGNFIER 591
Query: 591 SVFFGKGPQEALNFFDVLQPFLMECIFSNGFSVGLHDFSISGAV---KRIT--------- 638
+ KG + L+ Q L + + G SV L D +S + K +T
Sbjct: 592 LLKHDKG--KVLDIIYSAQEMLSQWLLMRGLSVSLADLYLSSDLQSRKNLTEEISYGLRE 649
Query: 639 ------------------------DRNIGKVSPLLYQLRFIY--------NELVAQQLEK 666
D+ VS L RF Y +EL +
Sbjct: 650 AEQVCNKQQLMVESWRDFLAVNGEDKEEDSVSDLA---RFCYERQKSATLSELAVSAFKD 706
Query: 667 HMQDIELPAIKFASKSSRLGDMIDSKSKSALDKVTQQIGFLGQQ------LFVRGRLYSK 720
+D++ A ++ +S+ M + SK + K+ Q +G Q F R +
Sbjct: 707 AYRDVQALAYRYGDQSNSFLIMSKAGSKGNIGKLVQHSMCIGLQNSAVSLSFGFPRELTC 766
Query: 721 GLLEDVASHFKLKCDYDGDGYPS-AEYGLLKGCFFHGLDPFEELVHSISTREIMVRSSRG 779
D S + D S YG+++ F GL+P E VHS+++R+ +
Sbjct: 767 AAWNDPNSPLRGAKGKDSTTTESYVPYGVIENSFLTGLNPLESFVHSVTSRDSSFSGNAD 826
Query: 780 LSEPGTLFKNLMAILRDVVVCYDGTVRNVCSNSIIQFEYGLKAGDNASYLFPAGEHVGVL 839
L PGTL + LM +RD+ YDGTVRN N ++QF Y + GE +G L
Sbjct: 827 L--PGTLSRRLMFFMRDIYAAYDGTVRNSFGNQLVQFTYE----TDGPVEDITGEALGSL 880
Query: 840 AATAMSNPAYKAV------LDASPSSNCSWELMKEILLCKVHFRNEPIDRRVILYLNDCD 893
+A A+S AY A+ L+ SP N +K +L C + ++ + LYL++
Sbjct: 881 SACALSEAAYSALDQPISLLETSPLLN-----LKNVLECGS--KKGQREQTMSLYLSEYL 933
Query: 894 CGRSYCRENAAYAVKNQLRKVSLKDTAVDFIVEYQQQRKRKGSEIDAGLVGHIHLDEVKL 953
+ + E + +KN L K+S + ++ + K + V H H+ E L
Sbjct: 934 SKKKHGFEYGSLEIKNHLEKLSFSEIVSTSMIIFSPSSNTKVPL--SPWVCHFHISEKVL 991
Query: 954 EELKINMAEVFQRCQEKLDSFNRKRKFNQIFKRTELFFSESCVSPNFSAP----CLTFIW 1009
+ +++ V E+ S NR+ K + + ++ + C S + + C+T
Sbjct: 992 KRKQLSAESVVSSLNEQYKSRNRELKLDIV--DLDIQNTNHCSSDDQAMKDDNVCITVTV 1049
Query: 1010 PAGDGNDLHETTKILADTICPALLDTIIQGDPRINSANIIWVNPDTNTWVRNPSKSSN-- 1067
+ + E I + P LLD+ ++GD I NI+W + + P ++ N
Sbjct: 1050 VEASKHSVLELDAIRL-VLIPFLLDSPVKGDQGIKKVNILWTDRP-----KAPKRNGNHL 1103
Query: 1068 -GELALDIILEKESIKQNGDAWRIVLDSCLPVLHLIDTRRSIPYAIKQIQELLGISCTFD 1126
GEL L + + + K+N W +L++CLP++ +ID RS P I+Q + GI
Sbjct: 1104 AGELYLKVTMYGDRGKRN--CWTALLETCLPIMDMIDWGRSHPDNIRQCCSVYGIDAGRS 1161
Query: 1127 QAIQRLAASVKMVAKGVLREHLILLASSMTCGGNLVGFNTGGYKALARQLNIQVPFTDAT 1186
+ L ++V K +LREHL+L+A S++ G V N G+ + + PFT A
Sbjct: 1162 IFVANLESAVSDTGKEILREHLLLVADSLSVTGEFVALNAKGWSKQRQVESTPAPFTQAC 1221
Query: 1187 LFTPKRCFERAAEKCHTDSLSSIVASCSWGKPVAVGTGSKFDVLWDAKEIKSNDLDGMDV 1246
+P +CF +AA++ D L + + +WGK GTG +F+++ K +DV
Sbjct: 1222 FSSPSQCFLKAAKEGVRDDLQGSIDALAWGKVPGFGTGDQFEIIISPK--VHGFTTPVDV 1279
Query: 1247 YNFLHMVKSL 1256
Y+ L K++
Sbjct: 1280 YDLLSSTKTM 1289
Score = 51.6 bits (122), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 34/62 (54%)
Query: 48 LGLPLEYGRCESCGTSEAGKCEGHFGYIELPVPIYHPSHVSELKKMLSLVCLNCLKMKKT 107
LGLP C +CG+ + CEGHFG I I +P + E+ +L+ +C C ++K
Sbjct: 47 LGLPNPDSVCRTCGSKDRKVCEGHFGVINFAYSIINPYFLKEVAALLNKICPGCKYIRKK 106
Query: 108 KF 109
+F
Sbjct: 107 QF 108
>AT1G63020.1 | Symbols: NRPD1A, POL IVA, SDE4, NRPD1, SMD2 | nuclear
RNA polymerase D1A | chr1:23355329-23361126 REVERSE
LENGTH=1453
Length = 1453
Score = 316 bits (810), Expect = 7e-86, Method: Compositional matrix adjust.
Identities = 277/1030 (26%), Positives = 454/1030 (44%), Gaps = 115/1030 (11%)
Query: 304 SDASNKAWLDKMKSLFISKGSGFSSRSVITGDGYKRINEVGIPHEIAQRITFEERVNSHN 363
SD L MK + + K S + R+V+ GD ++NE+GIP IA+R+ E +N N
Sbjct: 298 SDTPKLCGLRFMKDVLLGKRSDHTFRTVVVGDPSLKLNEIGIPESIAKRLQVSEHLNQCN 357
Query: 364 -----MCYLQKLVDENLCLAYKEGVSTYSLREGSKGHTYLKPGQIVHRRIMDGDIVFINR 418
++ L+D N + + G +++ L+ G + R +MDGD V +NR
Sbjct: 358 KERLVTSFVPTLLD-NKEMHVRRGDRLVAIQVND-----LQTGDKIFRSLMDGDTVLMNR 411
Query: 419 PPTTHKHSLQALVVYI-HDDHTVKINPLICGPLGADFDGDCVHLFYPQSLAAKAEVVELF 477
PP+ H+HSL A+ V I V +NP+ C P DFDGDC+H + PQS+ AK E+ EL
Sbjct: 412 PPSIHQHSLIAMTVRILPTTSVVSLNPICCLPFRGDFDGDCLHGYVPQSIQAKVELDELV 471
Query: 478 SVEKQLLSSH--XXXXXXXXXXXXXXXXXXXVKKGFMDRAAANQMAMFLSLPLPQPALLK 535
+++KQL++ K +++RA Q+ M+ LP PA++K
Sbjct: 472 ALDKQLINRQNGRNLLSLGQDSLTAAYLVNVEKNCYLNRAQMQQLQMYCPFQLPPPAIIK 531
Query: 536 AG--SGDCYWTSTQILQCALPLSFDCTG--GRYLIRESDILGFDLGRDVL-PAVINEIAA 590
A S + WT Q+ P FD T ++ ++L F G L N I
Sbjct: 532 ASPSSTEPQWTGMQLFGMLFPPGFDYTYPLNNVVVSNGELLSFSEGSAWLRDGEGNFIER 591
Query: 591 SVFFGKGPQEALNFFDVLQPFLMECIFSNGFSVGLHDFSISGAV---KRIT--------- 638
+ KG + L+ Q L + + G SV L D +S + K +T
Sbjct: 592 LLKHDKG--KVLDIIYSAQEMLSQWLLMRGLSVSLADLYLSSDLQSRKNLTEEISYGLRE 649
Query: 639 ------------------------DRNIGKVSPLLYQLRFIY--------NELVAQQLEK 666
D+ VS L RF Y +EL +
Sbjct: 650 AEQVCNKQQLMVESWRDFLAVNGEDKEEDSVSDLA---RFCYERQKSATLSELAVSAFKD 706
Query: 667 HMQDIELPAIKFASKSSRLGDMIDSKSKSALDKVTQQIGFLGQQ------LFVRGRLYSK 720
+D++ A ++ +S+ M + SK + K+ Q +G Q F R +
Sbjct: 707 AYRDVQALAYRYGDQSNSFLIMSKAGSKGNIGKLVQHSMCIGLQNSAVSLSFGFPRELTC 766
Query: 721 GLLEDVASHFKLKCDYDGDGYPS-AEYGLLKGCFFHGLDPFEELVHSISTREIMVRSSRG 779
D S + D S YG+++ F GL+P E VHS+++R+ +
Sbjct: 767 AAWNDPNSPLRGAKGKDSTTTESYVPYGVIENSFLTGLNPLESFVHSVTSRDSSFSGNAD 826
Query: 780 LSEPGTLFKNLMAILRDVVVCYDGTVRNVCSNSIIQFEYGLKAGDNASYLFPAGEHVGVL 839
L PGTL + LM +RD+ YDGTVRN N ++QF Y + GE +G L
Sbjct: 827 L--PGTLSRRLMFFMRDIYAAYDGTVRNSFGNQLVQFTYE----TDGPVEDITGEALGSL 880
Query: 840 AATAMSNPAYKAV------LDASPSSNCSWELMKEILLCKVHFRNEPIDRRVILYLNDCD 893
+A A+S AY A+ L+ SP N +K +L C + ++ + LYL++
Sbjct: 881 SACALSEAAYSALDQPISLLETSPLLN-----LKNVLECGS--KKGQREQTMSLYLSEYL 933
Query: 894 CGRSYCRENAAYAVKNQLRKVSLKDTAVDFIVEYQQQRKRKGSEIDAGLVGHIHLDEVKL 953
+ + E + +KN L K+S + ++ + K + V H H+ E L
Sbjct: 934 SKKKHGFEYGSLEIKNHLEKLSFSEIVSTSMIIFSPSSNTKVPL--SPWVCHFHISEKVL 991
Query: 954 EELKINMAEVFQRCQEKLDSFNRKRKFNQIFKRTELFFSESCVSPNFSAP----CLTFIW 1009
+ +++ V E+ S NR+ K + + ++ + C S + + C+T
Sbjct: 992 KRKQLSAESVVSSLNEQYKSRNRELKLDIV--DLDIQNTNHCSSDDQAMKDDNVCITVTV 1049
Query: 1010 PAGDGNDLHETTKILADTICPALLDTIIQGDPRINSANIIWVNPDTNTWVRNPSKSSN-- 1067
+ + E I + P LLD+ ++GD I NI+W + + P ++ N
Sbjct: 1050 VEASKHSVLELDAIRL-VLIPFLLDSPVKGDQGIKKVNILWTDRP-----KAPKRNGNHL 1103
Query: 1068 -GELALDIILEKESIKQNGDAWRIVLDSCLPVLHLIDTRRSIPYAIKQIQELLGISCTFD 1126
GEL L + + + K+N W +L++CLP++ +ID RS P I+Q + GI
Sbjct: 1104 AGELYLKVTMYGDRGKRN--CWTALLETCLPIMDMIDWGRSHPDNIRQCCSVYGIDAGRS 1161
Query: 1127 QAIQRLAASVKMVAKGVLREHLILLASSMTCGGNLVGFNTGGYKALARQLNIQVPFTDAT 1186
+ L ++V K +LREHL+L+A S++ G V N G+ + + PFT A
Sbjct: 1162 IFVANLESAVSDTGKEILREHLLLVADSLSVTGEFVALNAKGWSKQRQVESTPAPFTQAC 1221
Query: 1187 LFTPKRCFERAAEKCHTDSLSSIVASCSWGKPVAVGTGSKFDVLWDAKEIKSNDLDGMDV 1246
+P +CF +AA++ D L + + +WGK GTG +F+++ K +DV
Sbjct: 1222 FSSPSQCFLKAAKEGVRDDLQGSIDALAWGKVPGFGTGDQFEIIISPK--VHGFTTPVDV 1279
Query: 1247 YNFLHMVKSL 1256
Y+ L K++
Sbjct: 1280 YDLLSSTKTM 1289
Score = 51.6 bits (122), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 34/62 (54%)
Query: 48 LGLPLEYGRCESCGTSEAGKCEGHFGYIELPVPIYHPSHVSELKKMLSLVCLNCLKMKKT 107
LGLP C +CG+ + CEGHFG I I +P + E+ +L+ +C C ++K
Sbjct: 47 LGLPNPDSVCRTCGSKDRKVCEGHFGVINFAYSIINPYFLKEVAALLNKICPGCKYIRKK 106
Query: 108 KF 109
+F
Sbjct: 107 QF 108
>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 = 161 bits (407), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 142/559 (25%), Positives = 233/559 (41%), Gaps = 59/559 (10%)
Query: 309 KAWLDKMKSLFISKGSGFSSRSVITGDGYKRINEVGIPHEIAQRITFEERVNSHNMCYLQ 368
KA +++ + K FS+R+VIT D I+E+G+P IA +T+ E V +N+ L+
Sbjct: 341 KAKEGRIRGNLMGKRVDFSARTVITPDPTINIDELGVPWSIALNLTYPETVTPYNIERLK 400
Query: 369 KLVDENLCLAYKEGVSTYSLREGSK----------GHTYLKPGQIVHRRIMDGDIVFINR 418
+LVD + + Y +R+ + +L+ G V R + DGD V NR
Sbjct: 401 ELVDYGPHPPPGKTGAKYIIRDDGQRLDLRYLKKSSDQHLELGYKVERHLQDGDFVLFNR 460
Query: 419 PPTTHKHSLQALVVYIHDDHTVKINPLICGPLGADFDGDCVHLFYPQSLAAKAEVVELFS 478
P+ HK S+ + I T ++N + P ADFDGD +++ PQS +AEV+EL
Sbjct: 461 QPSLHKMSIMGHRIRIMPYSTFRLNLSVTSPYNADFDGDEMNMHVPQSFETRAEVLELMM 520
Query: 479 VEKQLLSSHXXXXXXXXXXXXXXXXXXXVKKG-FMDRAAANQMAMF---LSLPLPQPALL 534
V K ++S K+ F+++ M+ +P PA+L
Sbjct: 521 VPKCIVSPQANRPVMGIVQDTLLGCRKITKRDTFIEKDVFMNTLMWWEDFDGKVPAPAIL 580
Query: 535 KAGSGDCYWTSTQILQCALPLSFD---------------CTGGRYLIR--ESDILGFDLG 577
K WT Q+ +P + T G +R ++L L
Sbjct: 581 KPRP---LWTGKQVFNLIIPKQINLLRYSAWHADTETGFITPGDTQVRIERGELLAGTLC 637
Query: 578 RDVLPAVINEIAASVFFGKGPQEALNFFDVLQPFLMECIFSNGFSVGLHDFSISGAVKRI 637
+ L + ++ GP A F Q + + NGF++G+ D +
Sbjct: 638 KKTLGTSNGSLVHVIWEEVGPDAARKFLGHTQWLVNYWLLQNGFTIGIGDTIADSSTMEK 697
Query: 638 TDRNIGK----VSPLLYQ-------------LRFIYNELVAQQLEKHMQDIELPAIKFAS 680
+ I V L+ Q +R + V Q L K D A K +
Sbjct: 698 INETISNAKTAVKDLIRQFQGKELDPEPGRTMRDTFENRVNQVLNKARDDAGSSAQKSLA 757
Query: 681 KSSRLGDMIDSKSKSALDKVTQQIGFLGQQLFVRGRLYSKGLLEDVASHFKLKCDYDGDG 740
+++ L M+ + SK + ++Q +GQQ V G+ G HF D
Sbjct: 758 ETNNLKAMVTAGSKGSFINISQMTACVGQQ-NVEGKRIPFGFDGRTLPHFT------KDD 810
Query: 741 YPSAEYGLLKGCFFHGLDPFEELVHSISTREIMVRSSRGLSEPGTLFKNLMAILRDVVVC 800
Y G ++ + GL P E H++ RE ++ ++ SE G + + L+ + D++V
Sbjct: 811 YGPESRGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTSETGYIQRRLVKAMEDIMVK 870
Query: 801 YDGTVRNVCSNSIIQFEYG 819
YDGTVRN + +IQF YG
Sbjct: 871 YDGTVRNSLGD-VIQFLYG 888
>AT5G60040.1 | Symbols: NRPC1 | nuclear RNA polymerase C1 |
chr5:24173590-24183269 FORWARD LENGTH=1376
Length = 1376
Score = 140 bits (354), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 214/890 (24%), Positives = 349/890 (39%), Gaps = 149/890 (16%)
Query: 45 NPFLGLPLEYGRCESCGTSEAGKCEGHFGYIELPVPIYHPSHVSELKKMLSLVCLNC--- 101
+P +G P + C +C C GH+GY++L +P+Y+ + + + +L +C C
Sbjct: 63 DPRMGPPNKKSICTTC-EGNFQNCPGHYGYLKLDLPVYNVGYFNFILDILKCICKRCSNM 121
Query: 102 -----------LKMKKTKF-PSSSSGLAQRLLSPCCQEPNAAQVSIREVKTGDGACYLVL 149
KM+ + P + LA+ ++ C A+Q I K G YL
Sbjct: 122 LLDEKLYEDHLRKMRNPRMEPLKKTELAKAVVKKCSTM--ASQRIITCKKCG----YLNG 175
Query: 150 KVSKSKMQDGFWRFLDKYGY--------RYEVDHTR-----------ALLPCEVMEMIKR 190
V K Q G D+ + + HT+ L P V+ + KR
Sbjct: 176 MVKKIAAQFGIGISHDRSKIHGGEIDECKSAISHTKQSTAAINPLTYVLDPNLVLGLFKR 235
Query: 191 FPLETKKKLAGKGYFPQDGYVIKYLPVPPNCLXXXXXXXXXXXXXXXXXXTFLRKLLRKV 250
+ +L Y P++ +I + VPP + + +L
Sbjct: 236 MS-DKDCELLYIAYRPEN-LIITCMLVPPLSIRPSVMIGGIQSNENDLTARLKQIILGNA 293
Query: 251 EV--IRSSRSGEPNFESHQVEANDLQSVVDQYL--QIRGCAKPARDIETHFGVNKELSDA 306
+ I S + P ++ QV + +Q V +Y+ ++RGC + G+ + L
Sbjct: 294 SLHKILSQPTSSP--KNMQV-WDTVQIEVARYINSEVRGCQNQPEE-HPLSGILQRL--- 346
Query: 307 SNKAWLDKMKSLFISKGSGFSSRSVITGDGYKRINEVGIPHEIAQRITFEERVNSHNMCY 366
K + ++ K F+ R+VI+ D +I EVGIP +AQ +TF E V+ HN+
Sbjct: 347 --KGKGGRFRANLSGKRVEFTGRTVISPDPNLKITEVGIPILMAQILTFPECVSRHNIEK 404
Query: 367 LQKLVDEN-------LCLAYKEG-----VSTYSLREGSKGHTYLKPGQIVHRRIMDGDIV 414
L++ V + Y +G V Y R + L G IV R + +GD+V
Sbjct: 405 LRQCVRNGPNKYPGARNVRYPDGSSRTLVGDYRKRIADE----LAIGCIVDRHLQEGDVV 460
Query: 415 FINRPPTTHKHSLQALVVYIHDDHTVKINPLICGPLGADFDGDCVHLFYPQSLAAKAEVV 474
NR P+ H+ S+ I T++ N +C P ADFDGD +++ PQ+ A+ E +
Sbjct: 461 LFNRQPSLHRMSIMCHRARIMPWRTLRFNESVCNPYNADFDGDEMNMHVPQTEEARTEAI 520
Query: 475 ELFSVEKQLLSSHXXXXXXXXXXXXXXXXXXXVKK-GFMDRAAANQMAMFL-----SLPL 528
L V+ L + +K F DRAA + + ++ S+ L
Sbjct: 521 TLMGVQNNLCTPKNGEILVASTQDFLTSSFLITRKDTFYDRAAFSLICSYMGDGMDSIDL 580
Query: 529 PQPALLKAGSGDCYWTSTQILQCAL----------------------PLSFDCT----GG 562
P P +LK WT QI L FD T G
Sbjct: 581 PTPTILKPIE---LWTGKQIFSVLLRPNASIRVYVTLNVKEKNFKKGEHGFDETMCINDG 637
Query: 563 RYLIRESDILGFDLGRDVLPAVINEIAASVFFGK-GPQEALNFFDVLQPFLMECIFSNGF 621
R S+++ LG+ L + S+ A + L I +GF
Sbjct: 638 WVYFRNSELISGQLGKATLGNGNKDGLYSILLRDYNSHAAAVCMNRLAKLSARWIGIHGF 697
Query: 622 SVGLHD----------------FSISGAVKRITDRNIGKVSPLLYQLRFIYNELVAQQLE 665
S+G+ D F ++I + N G + QL+ + A+ LE
Sbjct: 698 SIGIDDVQPGEELSKERKDSIQFGYDQCHRKIEEFNRGNL-----QLKAGLDG--AKSLE 750
Query: 666 KHMQDIELPAIKFASKSS-------RLGDMIDSK--SKSALDKVTQQIGFLGQQLFVRGR 716
+ I L I+ A+ + R +I S+ SK + ++Q + +GQQ V G
Sbjct: 751 AEITGI-LNTIREATGKACMSGLHWRNSPLIMSQCGSKGSPINISQMVACVGQQT-VNGH 808
Query: 717 LYSKGLLEDVASHFKLKCDYDGDGYPSAEYGLLKGCFFHGLDPFEELVHSISTREIMVRS 776
G ++ HF P+A+ G + F+ GL E H++ RE +V +
Sbjct: 809 RAPDGFIDRSLPHFPRMSK-----SPAAK-GFVANSFYSGLTATEFFFHTMGGREGLVDT 862
Query: 777 SRGLSEPGTLFKNLMAILRDVVVCYDGTVRNVCSNSIIQFEYGLKAGDNA 826
+ + G + + LM L D++V YD TVRN S I+QF YG D A
Sbjct: 863 AVKTASTGYMSRRLMKALEDLLVHYDNTVRN-ASGCILQFTYGDDGMDPA 911
>AT5G60040.2 | Symbols: NRPC1 | nuclear RNA polymerase C1 |
chr5:24173590-24183269 FORWARD LENGTH=1391
Length = 1391
Score = 110 bits (276), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 143/575 (24%), Positives = 231/575 (40%), Gaps = 91/575 (15%)
Query: 45 NPFLGLPLEYGRCESCGTSEAGKCEGHFGYIELPVPIYHPSH-------------VSELK 91
+P +G P + C +C C GH+GY++L +P+Y+ + V+EL
Sbjct: 63 DPRMGPPNKKSICTTC-EGNFQNCPGHYGYLKLDLPVYNVGYFNFILDILKCICKVTELA 121
Query: 92 KMLSLVCLNCL-----------KMKKTKF-PSSSSGLAQRLLSPCCQEPNAAQVSIREVK 139
+SL C N L KM+ + P + LA+ ++ C A+Q I K
Sbjct: 122 DYVSLRCSNMLLDEKLYEDHLRKMRNPRMEPLKKTELAKAVVKKCSTM--ASQRIITCKK 179
Query: 140 TGDGACYLVLKVSKSKMQDGFWRFLDKYGY--------RYEVDHTR-----------ALL 180
G YL V K Q G D+ + + HT+ L
Sbjct: 180 CG----YLNGMVKKIAAQFGIGISHDRSKIHGGEIDECKSAISHTKQSTAAINPLTYVLD 235
Query: 181 PCEVMEMIKRFPLETKKKLAGKGYFPQDGYVIKYLPVPPNCLXXXXXXXXXXXXXXXXXX 240
P V+ + KR + +L Y P++ +I + VPP +
Sbjct: 236 PNLVLGLFKRMS-DKDCELLYIAYRPEN-LIITCMLVPPLSIRPSVMIGGIQSNENDLTA 293
Query: 241 TFLRKLLRKVEV--IRSSRSGEPNFESHQVEANDLQSVVDQYL--QIRGCAKPARDIETH 296
+ +L + I S + P ++ QV + +Q V +Y+ ++RGC +
Sbjct: 294 RLKQIILGNASLHKILSQPTSSP--KNMQV-WDTVQIEVARYINSEVRGCQNQPEE-HPL 349
Query: 297 FGVNKELSDASNKAWLDKMKSLFISKGSGFSSRSVITGDGYKRINEVGIPHEIAQRITFE 356
G+ + L K + ++ K F+ R+VI+ D +I EVGIP +AQ +TF
Sbjct: 350 SGILQRL-----KGKGGRFRANLSGKRVEFTGRTVISPDPNLKITEVGIPILMAQILTFP 404
Query: 357 ERVNSHNMCYLQKLVDEN-------LCLAYKEG-----VSTYSLREGSKGHTYLKPGQIV 404
E V+ HN+ L++ V + Y +G V Y R + L G IV
Sbjct: 405 ECVSRHNIEKLRQCVRNGPNKYPGARNVRYPDGSSRTLVGDYRKRIADE----LAIGCIV 460
Query: 405 HRRIMDGDIVFINRPPTTHKHSLQALVVYIHDDHTVKINPLICGPLGADFDGDCVHLFYP 464
R + +GD+V NR P+ H+ S+ I T++ N +C P ADFDGD +++ P
Sbjct: 461 DRHLQEGDVVLFNRQPSLHRMSIMCHRARIMPWRTLRFNESVCNPYNADFDGDEMNMHVP 520
Query: 465 QSLAAKAEVVELFSVEKQLLSSHXXXXXXXXXXXXXXXXXXXVKK-GFMDRAAANQMAMF 523
Q+ A+ E + L V+ L + +K F DRAA + + +
Sbjct: 521 QTEEARTEAITLMGVQNNLCTPKNGEILVASTQDFLTSSFLITRKDTFYDRAAFSLICSY 580
Query: 524 L-----SLPLPQPALLKAGSGDCYWTSTQILQCAL 553
+ S+ LP P +LK WT QI L
Sbjct: 581 MGDGMDSIDLPTPTILKPIE---LWTGKQIFSVLL 612
Score = 57.8 bits (138), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 42/134 (31%), Positives = 64/134 (47%), Gaps = 8/134 (5%)
Query: 693 SKSALDKVTQQIGFLGQQLFVRGRLYSKGLLEDVASHFKLKCDYDGDGYPSAEYGLLKGC 752
SK + ++Q + +GQQ V G G ++ HF P+A+ G +
Sbjct: 803 SKGSPINISQMVACVGQQT-VNGHRAPDGFIDRSLPHFPRMSKS-----PAAK-GFVANS 855
Query: 753 FFHGLDPFEELVHSISTREIMVRSSRGLSEPGTLFKNLMAILRDVVVCYDGTVRNVCSNS 812
F+ GL E H++ RE +V ++ + G + + LM L D++V YD TVRN S
Sbjct: 856 FYSGLTATEFFFHTMGGREGLVDTAVKTASTGYMSRRLMKALEDLLVHYDNTVRN-ASGC 914
Query: 813 IIQFEYGLKAGDNA 826
I+QF YG D A
Sbjct: 915 ILQFTYGDDGMDPA 928
>AT3G57660.1 | Symbols: NRPA1 | nuclear RNA polymerase A1 |
chr3:21353746-21362814 FORWARD LENGTH=1670
Length = 1670
Score = 82.4 bits (202), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 60/202 (29%), Positives = 93/202 (46%), Gaps = 31/202 (15%)
Query: 312 LDKMKSLFISKGSG----FSSRSVITGDGYKRINEVGIPHEIAQRITFEERVNSHNMCYL 367
L+K + LF K G + RSVI+ D Y +N++GIP A ++T+ ERV N+ L
Sbjct: 430 LEKKEGLFRQKMMGKRVNHACRSVISPDPYIAVNDIGIPPCFALKLTYPERVTPWNVEKL 489
Query: 368 QKLVDENL-----CLAYKEGVSTYSLREGSKGHTYLK---------------------PG 401
++ + Y + ST L K + G
Sbjct: 490 REAIINGPDIHPGATHYSDKSSTMKLPSTEKARRAIARKLLSSRGATTELGKTCDINFEG 549
Query: 402 QIVHRRIMDGDIVFINRPPTTHKHSLQALVVYI-HDDHTVKINPLICGPLGADFDGDCVH 460
+ VHR + DGDIV +NR PT HK SL A V + + T++++ C ADFDGD ++
Sbjct: 550 KTVHRHMRDGDIVLVNRQPTLHKPSLMAHKVRVLKGEKTLRLHYANCSTYNADFDGDEMN 609
Query: 461 LFYPQSLAAKAEVVELFSVEKQ 482
+ +PQ ++AE + + Q
Sbjct: 610 VHFPQDEISRAEAYNIVNANNQ 631
>ATCG00180.1 | Symbols: RPOC1 | DNA-directed RNA polymerase family
protein | chrC:20251-23084 REVERSE LENGTH=680
Length = 680
Score = 70.1 bits (170), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 64/216 (29%), Positives = 98/216 (45%), Gaps = 25/216 (11%)
Query: 273 LQSVVDQYLQ--IRGCAKPARDIETHFGVNKELSDASNKAWLDKMKSLFISKGSGFSSRS 330
+Q VD L IRG +P RD H V K SD + + + + K +S RS
Sbjct: 328 VQEAVDTLLDNGIRG--QPMRD--GHNKVYKSFSDVI-EGKEGRFRETLLGKRVDYSGRS 382
Query: 331 VITGDGYKRINEVGIPHEIAQRITFEERVNSHNMCYLQKLVDENLCLAYKEGVSTYSLRE 390
VI ++ G+P EIA + ++ L+ ++L A GV+ +RE
Sbjct: 383 VIVVGPSLSLHRCGLPREIA--------IELFQTFVIRGLIRQHL--ASNIGVAKSQIRE 432
Query: 391 GSKGHTYLKPGQI-VHRRIMDGDIVFINRPPTTHKHSLQALVVYIHDDHTVKINPLICGP 449
KP + + +M G V +NR PT H+ +Q+ + + T+ ++PL+C
Sbjct: 433 K-------KPIVWEILQEVMQGHPVLLNRAPTLHRLGIQSFQPILVEGRTICLHPLVCKG 485
Query: 450 LGADFDGDCVHLFYPQSLAAKAEVVELFSVEKQLLS 485
ADFDGD + + P SL A+AE L LLS
Sbjct: 486 FNADFDGDQMAVHVPLSLEAQAEARLLMFSHMNLLS 521