Miyakogusa Predicted Gene

Lj0g3v0102149.1
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= 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: TAIR10_pep 
           35,386 sequences; 14,482,855 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AT3G54490.1 | Symbols: RPB5E | RNA polymerase II fifth largest s...   200   6e-52
AT2G41340.1 | Symbols: RPB5D | RNA polymerase II fifth largest s...   192   1e-49
AT3G57080.1 | Symbols: RPB5B, NRPE5 | Eukaryotic rpb5 RNA polyme...   190   5e-49
AT3G22320.1 | Symbols: ATRPABC24.3, RPB5A, NRPB5, NRPD5 | Eukary...   117   6e-27
AT5G57980.1 | Symbols: RPB5C | RNA polymerase II fifth largest s...   112   2e-25

>AT3G54490.1 | Symbols: RPB5E | RNA polymerase II fifth largest
           subunit, E | chr3:20173673-20175297 FORWARD LENGTH=233
          Length = 233

 Score =  200 bits (508), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 99/200 (49%), Positives = 135/200 (67%)

Query: 19  VESRRYFQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPS 78
           +ES+R++    T  EMLRDRGY+V   +L+L+LSEFRS FG++P  + L +CV  RS P 
Sbjct: 34  IESKRFYLARTTAFEMLRDRGYEVNEAELSLTLSEFRSVFGEKPELERLRICVPLRSDPK 93

Query: 79  NKVQVVFAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQKPYKVEII 138
            K+ VVF GT+ I   ++  +  QI +   L  +IL++QSKM  FA K L   P+ VE  
Sbjct: 94  KKILVVFMGTEPITVKSVRALHIQISNNVGLHAMILVLQSKMNHFAQKALTTFPFTVETF 153

Query: 139 KLSDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQV 198
            + DLLVNIT H+ QPK EIL+  EK++LL K+ LEDKQLPY+   D+  RYYGL+K QV
Sbjct: 154 PIEDLLVNITKHIQQPKIEILNKEEKEQLLRKHALEDKQLPYLQEKDSFVRYYGLKKKQV 213

Query: 199 IKITHSADMVNSLVTYRCVL 218
           +KIT+S + V   VTYRC++
Sbjct: 214 VKITYSKEPVGDFVTYRCII 233


>AT2G41340.1 | Symbols: RPB5D | RNA polymerase II fifth largest
           subunit, D | chr2:17229026-17230442 FORWARD LENGTH=218
          Length = 218

 Score =  192 bits (489), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 92/199 (46%), Positives = 136/199 (68%)

Query: 19  VESRRYFQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPS 78
           VE  +Y+   +T +EMLRDRGYDV   D+NLSL +FR+ +G+ P+   L +   HR   S
Sbjct: 19  VECHKYYLARRTTMEMLRDRGYDVSDEDINLSLQQFRALYGEHPDVDLLRISAKHRFDSS 78

Query: 79  NKVQVVFAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQKPYKVEII 138
            K+ VVF GT  +K   +  I   ++ RE +T LIL++QS +T+ ALK +E   +KVE+ 
Sbjct: 79  KKISVVFCGTGIVKVNAMRVIAADVLSRENITGLILVLQSHITNQALKAVELFSFKVELF 138

Query: 139 KLSDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQV 198
           +++DLLVN++ HVL+PK+++L+  EK+ LL K+ +E+KQLP +   D I RYYGLE GQV
Sbjct: 139 EITDLLVNVSKHVLRPKHQVLNDKEKESLLKKFSIEEKQLPRLSSKDPIVRYYGLETGQV 198

Query: 199 IKITHSADMVNSLVTYRCV 217
           +K+T+  ++  S VTYRCV
Sbjct: 199 MKVTYKDELSESHVTYRCV 217


>AT3G57080.1 | Symbols: RPB5B, NRPE5 | Eukaryotic rpb5 RNA
           polymerase subunit family protein |
           chr3:21125878-21127470 FORWARD LENGTH=222
          Length = 222

 Score =  190 bits (483), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 90/199 (45%), Positives = 137/199 (68%)

Query: 20  ESRRYFQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPSN 79
           ES RY+   +  L+MLRDRGY+V   D+NLSL +FR+ +G++P+   L +   HRS  + 
Sbjct: 24  ESHRYYLARRNGLQMLRDRGYEVSDEDINLSLHDFRTVYGERPDVDRLRISALHRSDSTK 83

Query: 80  KVQVVFAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQKPYKVEIIK 139
           KV++VF GT  +K   I  +   I+ +E +T LIL++Q+ +T+ ALK +E   +KVEI +
Sbjct: 84  KVKIVFFGTSMVKVNAIRSVVADILSQETITGLILVLQNHVTNQALKAIELFSFKVEIFQ 143

Query: 140 LSDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQVI 199
           ++DLLVNIT H L+P++++L+  EK  LL K+ +E+KQLP + + DAI RYYGLEKGQV+
Sbjct: 144 ITDLLVNITKHSLKPQHQVLNDEEKTTLLKKFSIEEKQLPRISKKDAIVRYYGLEKGQVV 203

Query: 200 KITHSADMVNSLVTYRCVL 218
           K+ +  ++  S V +RCV 
Sbjct: 204 KVNYRGELTESHVAFRCVW 222


>AT3G22320.1 | Symbols: ATRPABC24.3, RPB5A, NRPB5, NRPD5 |
           Eukaryotic rpb5 RNA polymerase subunit family protein |
           chr3:7891045-7892094 REVERSE LENGTH=205
          Length = 205

 Score =  117 bits (293), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 63/201 (31%), Positives = 120/201 (59%), Gaps = 3/201 (1%)

Query: 20  ESRRYFQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQQPNPQTLGVCVSHRSRPSN 79
           E +R ++  +T+++MLRDRGY +  ++L ++  +F  + G     + L    + R+  S+
Sbjct: 6   ELKRLYRIQKTLMQMLRDRGYFIADSELTMTKQQFIRKHGDNMKREDLVTLKAKRNDNSD 65

Query: 80  KVQVVFAGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQ--KPYKVEI 137
           ++ + F    ++   T+    +++   E + R IL+VQ  +T FA   + +    + +E+
Sbjct: 66  QLYIFFPDEAKVGVKTMKMYTNRM-KSENVFRAILVVQQNLTPFARTCISEISSKFHLEV 124

Query: 138 IKLSDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIARYYGLEKGQ 197
            + +++LVNI  HVL P++++L+  EK+ LL +Y +++ QLP +  TD IARY+GL++GQ
Sbjct: 125 FQEAEMLVNIKEHVLVPEHQVLTTEEKKTLLERYTVKETQLPRIQVTDPIARYFGLKRGQ 184

Query: 198 VIKITHSADMVNSLVTYRCVL 218
           V+KI   ++     VTYR V+
Sbjct: 185 VVKIIRPSETAGRYVTYRYVV 205


>AT5G57980.1 | Symbols: RPB5C | RNA polymerase II fifth largest
           subunit, C | chr5:23469050-23469768 REVERSE LENGTH=210
          Length = 210

 Score =  112 bits (280), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 75/209 (35%), Positives = 114/209 (54%), Gaps = 15/209 (7%)

Query: 20  ESRRYFQCLQTVLEMLRDRGYDVPLTDLNLSLSEFRSRFGQ---QPNPQTLGVCVSHRSR 76
           E  R F+  +TVL+MLRDRGY +  +DLNL   EF  RF +   + N + L V  +    
Sbjct: 7   EITRIFKVRRTVLQMLRDRGYTIEESDLNLKREEFVQRFCKTMNKVNKEALFVSANKGPN 66

Query: 77  PSNKVQVVF-----AGTDQIKKGTISGICDQIVDRERLTRLILIVQSKMTSFALKVLEQ- 130
           P++K+ V +      G   IKK     + D     +++ R I++V   +T+ A   + + 
Sbjct: 67  PADKIYVFYPEGPKVGVPVIKKEVAIKMRD-----DKVHRGIVVVPMAITAPARMAVSEL 121

Query: 131 -KPYKVEIIKLSDLLVNITNHVLQPKYEILSANEKQKLLMKYKLEDKQLPYMLRTDAIAR 189
            K   +E+ + ++L+ NIT H L  KY +L    K+KLL  Y ++D QLP +L TD +AR
Sbjct: 122 NKMLTIEVFEEAELVTNITEHKLVNKYYVLDDQAKKKLLNTYTVQDTQLPRILVTDPLAR 181

Query: 190 YYGLEKGQVIKITHSADMVNSLVTYRCVL 218
           YYGL++GQV+KI  S        TYR  +
Sbjct: 182 YYGLKRGQVVKIRRSDATSLDYYTYRFAV 210