Miyakogusa Predicted Gene
- Lj0g3v0102149.1
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= Lj0g3v0102149.1 tr|Q2HW77|Q2HW77_MEDTR RNA polymerase subunit,
RPB5; RNA polymerase Rpb5, N-terminal OS=Medicago
tru,64.35,0,RNA_pol_Rpb5_C,RNA polymerase, subunit H/Rpb5 C-terminal;
RNA_pol_Rpb5_N,RNA polymerase, Rpb5, N-ter,CUFF.5754.1
(218 letters)
Database: Medicago_aa4.0v1
62,319 sequences; 21,947,249 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Medtr7g090220.1 | DNA-directed RNA polymerase II | HC | chr7:354... 207 8e-54
Medtr5g005470.1 | DNA-directed RNA polymerase II | HC | chr5:465... 126 1e-29
Medtr6g042230.3 | DNA-directed RNA polymerase II | HC | chr6:145... 126 2e-29
Medtr6g042230.2 | DNA-directed RNA polymerase II | HC | chr6:145... 126 2e-29
Medtr6g042230.4 | DNA-directed RNA polymerase II | HC | chr6:145... 126 2e-29
Medtr6g042230.1 | DNA-directed RNA polymerase II | HC | chr6:145... 126 2e-29
Medtr5g016200.1 | DNA-directed RNA polymerase II | HC | chr5:576... 124 9e-29
Medtr5g016220.1 | DNA-directed RNA polymerase II | LC | chr5:577... 123 1e-28
Medtr3g058520.1 | RNA polymerase Rpb5, amine-terminal domain pro... 121 5e-28
Medtr6g088010.1 | DNA-directed RNA polymerase II | HC | chr6:331... 120 1e-27
Medtr6g088020.1 | DNA-directed RNA polymerase II | LC | chr6:331... 115 4e-26
Medtr3g018620.1 | RNA polymerase II fifth largest protein | HC |... 84 8e-17
>Medtr7g090220.1 | DNA-directed RNA polymerase II | HC |
chr7:35416865-35412434 | 20130731
Length = 248
Score = 207 bits (526), Expect = 8e-54, Method: Compositional matrix adjust.
Identities = 99/200 (49%), Positives = 144/200 (72%)
Query: 19 VESRRYFQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPS 78
+ES RY+ +TVLEML+DRGY +P ++ LSL +FR GQ P+ L + +H + PS
Sbjct: 49 IESHRYYLSRRTVLEMLKDRGYSIPSDEIQLSLDDFRQIHGQSPDVDRLRLTATHATNPS 108
Query: 79 NKVQVVFAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQKPYKVEII 138
++ VVF+G +K + I QIV+RE LT LILIVQ+++TS ALK + +KVEI
Sbjct: 109 KRILVVFSGPGIVKVNGVRDIAGQIVNRESLTGLILIVQNQITSQALKAVNLLSFKVEIF 168
Query: 139 KLSDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQV 198
+++DLLVN T HVL+PK+++L+ +K+ LL KY +++KQLP ML+TDAIARYYGL++GQV
Sbjct: 169 QITDLLVNATKHVLKPKHQVLTDKQKKNLLKKYDIQEKQLPRMLQTDAIARYYGLQRGQV 228
Query: 199 IKITHSADMVNSLVTYRCVL 218
+K+T++ ++ VTYRCV
Sbjct: 229 VKVTYTGEITQMHVTYRCVW 248
>Medtr5g005470.1 | DNA-directed RNA polymerase II | HC |
chr5:465125-468574 | 20130731
Length = 206
Score = 126 bits (317), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 67/201 (33%), Positives = 124/201 (61%), Gaps = 3/201 (1%)
Query: 20 ESRRYFQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPSN 79
E R ++ +TV++ML+DR Y V +LN+S +F+ ++G+ + L + + + +PS+
Sbjct: 7 EITRLYRIRKTVMQMLKDRNYLVGDFELNMSKHDFKDKYGENMKREDLVINKTKKDKPSD 66
Query: 80 KVQVVFAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQ--KPYKVEI 137
++ V F ++ T+ +++ + E + R IL+ Q+ +T FA + + + +E+
Sbjct: 67 QIYVFFPEEAKVGVKTMKTYTNRM-NSENVYRAILVCQTSLTPFAKTCVSEIASKFHLEV 125
Query: 138 IKLSDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQ 197
+ ++LLVNI HVL P+++IL+ EK+ LL +Y +++ QLP + TD +ARYYGL++GQ
Sbjct: 126 FQEAELLVNIKEHVLVPEHQILNDTEKKTLLERYTVKETQLPRIQVTDPVARYYGLKRGQ 185
Query: 198 VIKITHSADMVNSLVTYRCVL 218
V+KI ++ VTYR V+
Sbjct: 186 VVKIIRPSETAGRYVTYRFVV 206
>Medtr6g042230.3 | DNA-directed RNA polymerase II | HC |
chr6:14548035-14546062 | 20130731
Length = 205
Score = 126 bits (316), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 71/200 (35%), Positives = 121/200 (60%), Gaps = 2/200 (1%)
Query: 20 ESRRYFQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPSN 79
E + ++ +TV +MLRDR Y V +++N+S E +++FG+ N + L + +++ PS+
Sbjct: 7 EVTKLYRIRRTVFQMLRDRNYRVLDSEVNMSKQELKAKFGENMNRKDLTIQTTNKDDPSD 66
Query: 80 KVQVVFAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQ-KPYKVEII 138
K+ V F ++ TI I D I+ E + R I++VQ+++ S A L ++E
Sbjct: 67 KIYVFFRDDAKLGVSTIKTIKDLILT-EGVYRAIIVVQNELKSKARSELNLFSEVRIEAF 125
Query: 139 KLSDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQV 198
+LLVN+ HVL P++++L+ EK+ LL Y +++ QLP ML TD +A+YYGL++GQV
Sbjct: 126 LEDELLVNVIEHVLVPEHQVLTNAEKKDLLSTYTVKETQLPRMLVTDPVAKYYGLKRGQV 185
Query: 199 IKITHSADMVNSLVTYRCVL 218
+I ++ VTYR V+
Sbjct: 186 CRIIRHSETAGIYVTYRIVV 205
>Medtr6g042230.2 | DNA-directed RNA polymerase II | HC |
chr6:14548035-14546062 | 20130731
Length = 205
Score = 126 bits (316), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 71/200 (35%), Positives = 121/200 (60%), Gaps = 2/200 (1%)
Query: 20 ESRRYFQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPSN 79
E + ++ +TV +MLRDR Y V +++N+S E +++FG+ N + L + +++ PS+
Sbjct: 7 EVTKLYRIRRTVFQMLRDRNYRVLDSEVNMSKQELKAKFGENMNRKDLTIQTTNKDDPSD 66
Query: 80 KVQVVFAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQ-KPYKVEII 138
K+ V F ++ TI I D I+ E + R I++VQ+++ S A L ++E
Sbjct: 67 KIYVFFRDDAKLGVSTIKTIKDLILT-EGVYRAIIVVQNELKSKARSELNLFSEVRIEAF 125
Query: 139 KLSDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQV 198
+LLVN+ HVL P++++L+ EK+ LL Y +++ QLP ML TD +A+YYGL++GQV
Sbjct: 126 LEDELLVNVIEHVLVPEHQVLTNAEKKDLLSTYTVKETQLPRMLVTDPVAKYYGLKRGQV 185
Query: 199 IKITHSADMVNSLVTYRCVL 218
+I ++ VTYR V+
Sbjct: 186 CRIIRHSETAGIYVTYRIVV 205
>Medtr6g042230.4 | DNA-directed RNA polymerase II | HC |
chr6:14548035-14546062 | 20130731
Length = 205
Score = 126 bits (316), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 71/200 (35%), Positives = 121/200 (60%), Gaps = 2/200 (1%)
Query: 20 ESRRYFQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPSN 79
E + ++ +TV +MLRDR Y V +++N+S E +++FG+ N + L + +++ PS+
Sbjct: 7 EVTKLYRIRRTVFQMLRDRNYRVLDSEVNMSKQELKAKFGENMNRKDLTIQTTNKDDPSD 66
Query: 80 KVQVVFAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQ-KPYKVEII 138
K+ V F ++ TI I D I+ E + R I++VQ+++ S A L ++E
Sbjct: 67 KIYVFFRDDAKLGVSTIKTIKDLILT-EGVYRAIIVVQNELKSKARSELNLFSEVRIEAF 125
Query: 139 KLSDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQV 198
+LLVN+ HVL P++++L+ EK+ LL Y +++ QLP ML TD +A+YYGL++GQV
Sbjct: 126 LEDELLVNVIEHVLVPEHQVLTNAEKKDLLSTYTVKETQLPRMLVTDPVAKYYGLKRGQV 185
Query: 199 IKITHSADMVNSLVTYRCVL 218
+I ++ VTYR V+
Sbjct: 186 CRIIRHSETAGIYVTYRIVV 205
>Medtr6g042230.1 | DNA-directed RNA polymerase II | HC |
chr6:14548035-14546062 | 20130731
Length = 205
Score = 126 bits (316), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 71/200 (35%), Positives = 121/200 (60%), Gaps = 2/200 (1%)
Query: 20 ESRRYFQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPSN 79
E + ++ +TV +MLRDR Y V +++N+S E +++FG+ N + L + +++ PS+
Sbjct: 7 EVTKLYRIRRTVFQMLRDRNYRVLDSEVNMSKQELKAKFGENMNRKDLTIQTTNKDDPSD 66
Query: 80 KVQVVFAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQ-KPYKVEII 138
K+ V F ++ TI I D I+ E + R I++VQ+++ S A L ++E
Sbjct: 67 KIYVFFRDDAKLGVSTIKTIKDLILT-EGVYRAIIVVQNELKSKARSELNLFSEVRIEAF 125
Query: 139 KLSDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQV 198
+LLVN+ HVL P++++L+ EK+ LL Y +++ QLP ML TD +A+YYGL++GQV
Sbjct: 126 LEDELLVNVIEHVLVPEHQVLTNAEKKDLLSTYTVKETQLPRMLVTDPVAKYYGLKRGQV 185
Query: 199 IKITHSADMVNSLVTYRCVL 218
+I ++ VTYR V+
Sbjct: 186 CRIIRHSETAGIYVTYRIVV 205
>Medtr5g016200.1 | DNA-directed RNA polymerase II | HC |
chr5:5769140-5767170 | 20130731
Length = 199
Score = 124 bits (310), Expect = 9e-29, Method: Compositional matrix adjust.
Identities = 62/190 (32%), Positives = 119/190 (62%), Gaps = 2/190 (1%)
Query: 25 FQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPSNKVQVV 84
++ +TV+EMLRDR Y V ++N+S EF+ ++G+ N + L + + + PS+++ V
Sbjct: 12 YRIRKTVMEMLRDRNYLVGDFEVNMSKEEFKEKYGEHMNREDLVINKAKKDNPSDQIYVF 71
Query: 85 FAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQKPYKVEIIKLSDLL 144
F +++ T C + ++ E + R I++ Q+ +T+ AL ++ K + +E+ + ++LL
Sbjct: 72 FPEDEKVGVHTFR-TCTKRMNSENVYRAIIVCQTSLTNMALSEIDSK-FHLEVFQEAELL 129
Query: 145 VNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQVIKITHS 204
VN+ H L P++++L+ NEK+ LL +Y +++ QLP + D +A YYG+++GQV+KI
Sbjct: 130 VNVRYHELVPEHQVLTDNEKKTLLERYTVKETQLPRIQVRDPVAGYYGMKRGQVVKIIRP 189
Query: 205 ADMVNSLVTY 214
++ VTY
Sbjct: 190 SETAGRYVTY 199
>Medtr5g016220.1 | DNA-directed RNA polymerase II | LC |
chr5:5775424-5773829 | 20130731
Length = 331
Score = 123 bits (308), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 62/195 (31%), Positives = 119/195 (61%), Gaps = 3/195 (1%)
Query: 25 FQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPSNKVQVV 84
++ +TV+EMLRDR Y V ++N+S EF+ ++G+ N + L + + + PS+++ V
Sbjct: 137 YRIRKTVMEMLRDRNYLVGDFEVNMSKEEFKEKYGEHMNREDLVINKAKKDNPSDQIYVF 196
Query: 85 FAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQ--KPYKVEIIKLSD 142
F +++ T ++ + E + R I++ Q+ +T+ A + Q + +E+ + ++
Sbjct: 197 FPEDEKVGVHTFRTYTKRM-NSENVYRAIIVCQTSLTNMAWNSISQFDSKFHLEVFQEAE 255
Query: 143 LLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQVIKIT 202
LLVN+ H L P++++L+ NEK+ +L +Y +++ QLP + D +ARYYG+++GQV+KI
Sbjct: 256 LLVNVRYHKLVPEHQLLTDNEKKTVLERYTVKETQLPRIQVRDPVARYYGMKRGQVVKII 315
Query: 203 HSADMVNSLVTYRCV 217
++ VTYR V
Sbjct: 316 RPSETAGRYVTYRFV 330
>Medtr3g058520.1 | RNA polymerase Rpb5, amine-terminal domain
protein | HC | chr3:23254652-23255279 | 20130731
Length = 162
Score = 121 bits (303), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 57/73 (78%), Positives = 67/73 (91%), Gaps = 1/73 (1%)
Query: 138 IKLSDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQ 197
IKL+DLLVN+T HVLQPKYE+L+ANEKQ LL KYK+E+KQLP+MLRTDAIA YYGLEKGQ
Sbjct: 91 IKLNDLLVNVTKHVLQPKYEVLTANEKQNLL-KYKVEEKQLPHMLRTDAIASYYGLEKGQ 149
Query: 198 VIKITHSADMVNS 210
V+KI+HS +M NS
Sbjct: 150 VVKISHSGEMFNS 162
>Medtr6g088010.1 | DNA-directed RNA polymerase II | HC |
chr6:33134610-33139441 | 20130731
Length = 208
Score = 120 bits (300), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 64/195 (32%), Positives = 116/195 (59%), Gaps = 5/195 (2%)
Query: 25 FQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPSNKVQVV 84
F+ +T+L+ML DR Y V T+L +S +F ++G+ + L + +HR+ PS K+ V
Sbjct: 12 FRIQKTLLQMLSDRNYLVEETELTMSREDFIFKYGEHMKREQLEINKTHRNNPSEKICVF 71
Query: 85 FAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQ----KPYKVEIIKL 140
F+ ++ + G +++ +E + IL+ Q+K++ +A + + ++E+
Sbjct: 72 FSDDAKLGVKIVRGFITRML-QENVDSGILVCQTKLSHYARSAVTEMSSVGSKRLEVFLE 130
Query: 141 SDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQVIK 200
+LLVNIT H P +++L+ EK+ LL KY ++D QLP +L +D +ARYYGL +GQV++
Sbjct: 131 DELLVNITKHERVPPHQVLTEAEKRALLKKYTVKDTQLPRILTSDPVARYYGLRRGQVVR 190
Query: 201 ITHSADMVNSLVTYR 215
I ++ + +TYR
Sbjct: 191 IIRPSETAGTYITYR 205
>Medtr6g088020.1 | DNA-directed RNA polymerase II | LC |
chr6:33140434-33143238 | 20130731
Length = 208
Score = 115 bits (288), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 63/197 (31%), Positives = 114/197 (57%), Gaps = 5/197 (2%)
Query: 23 RYFQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPSNKVQ 82
+ ++ +T+L+ML DR Y V T L +S +F +FG+ + L + +HR+ S K+
Sbjct: 10 KLYRIRKTILQMLFDRNYLVDETQLTMSREDFIFKFGEHMKREQLEINTTHRNNLSEKIC 69
Query: 83 VVFAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQ----KPYKVEII 138
V F ++ + GI ++++ +E + I++ Q+K++ A K + ++E+
Sbjct: 70 VFFFDDAKLGVNIVRGIINRML-KENVDNGIMVCQNKLSPAARKAVAGMSSIGSKRLEVF 128
Query: 139 KLSDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQV 198
+LLVNIT H P +++L+ EK+ LL +Y ++D QLP +L D +ARYYGL +GQV
Sbjct: 129 MEDELLVNITKHERVPPHQVLTDTEKKALLKRYTVKDTQLPKILTNDPVARYYGLRRGQV 188
Query: 199 IKITHSADMVNSLVTYR 215
++I ++ + +TYR
Sbjct: 189 VRIIRPSETAGTYITYR 205
>Medtr3g018620.1 | RNA polymerase II fifth largest protein | HC |
chr3:5103859-5103460 | 20130731
Length = 86
Score = 84.3 bits (207), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 38/60 (63%), Positives = 48/60 (80%)
Query: 19 VESRRYFQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPS 78
+E+ RYF+C +T+++ML DRGY+V +DL LSLSEFRSRFG+ P P TLGV VS RS PS
Sbjct: 25 IETIRYFECRKTLMDMLHDRGYNVSESDLTLSLSEFRSRFGEFPKPHTLGVSVSLRSNPS 84