Miyakogusa Predicted Gene

Lj0g3v0149999.3
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= Lj0g3v0149999.3 tr|F2CUH7|F2CUH7_HORVD DNA-directed RNA
polymerase OS=Hordeum vulgare var. distichum PE=2
SV=1,27.01,1e-17,beta and beta-prime subunits of DNA dependent
RNA-polymerase,NULL; DNA-DIRECTED RNA POLYMERASE,NULL;,CUFF.9209.3
         (421 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AT1G63020.2 | Symbols: NRPD1A | nuclear RNA polymerase D1A | chr...   306   2e-83
AT1G63020.1 | Symbols: NRPD1A, POL IVA, SDE4, NRPD1, SMD2 | nucl...   306   2e-83
AT2G40030.1 | Symbols: NRPD1B, DRD3, ATNRPD1B, DMS5, NRPE1 | nuc...    69   5e-12

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

 Score =  306 bits (784), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 181/418 (43%), Positives = 251/418 (60%), Gaps = 24/418 (5%)

Query: 13  DKFHEHNMPSGVITAIKFDVLTGEDIRTISALEIEAAGQVVCSDLGLPNSSEVCTTCGTN 72
           D   E  +P G +T+I F +    D   +S LE+EA  QV  S LGLPN   VC TCG+ 
Sbjct: 3   DDCEELQVPVGTLTSIGFSISNNNDRDKMSVLEVEAPNQVTDSRLGLPNPDSVCRTCGSK 62

Query: 73  DKKLCEGHFGAIKFPFSIVHPYFISEAAEILNKICPACKSIRCDLLIKGVKFLSVDKKLN 132
           D+K+CEGHFG I F +SI++PYF+ E A +LNKICP CK IR        +F   + +  
Sbjct: 63  DRKVCEGHFGVINFAYSIINPYFLKEVAALLNKICPGCKYIRKK------QFQITEDQPE 116

Query: 133 DCKYCSGISMGRYPTMKFRVSYNNLSRSPEIISEINDTASKKKTLGQR----LAADYWDF 188
            C+YC+ ++ G YP MKFRV+   + R   I+ E+N+ +  K  L +R    L  DYW F
Sbjct: 117 RCRYCT-LNTG-YPLMKFRVTTKEVFRRSGIVVEVNEESLMK--LKKRGVLTLPPDYWSF 172

Query: 189 IPNGSEEEESLVN---RRLSLSQVHHLLSDVDPDFIEKYVPRKSLLDLNYFPVTPNGHRV 245
           +P  S  +ES +    R ++ +QV+ LL  +D   I+K +P  + L L  FPVTPNG+RV
Sbjct: 173 LPQDSNIDESCLKPTRRIITHAQVYALLLGIDQRLIKKDIPMFNSLGLTSFPVTPNGYRV 232

Query: 246 TEFSHRPSNGPKLSFDDRTRACKKLVDFRGPAVELSSHVINSLSLSKLNPDKTPSNMFTE 305
           TE  H+  NG +L FD+RTR  KKLV F G  +ELSS V+  +  S+L  +   S+  + 
Sbjct: 233 TEIVHQ-FNGARLIFDERTRIYKKLVGFEGNTLELSSRVMECMQYSRLFSETVSSSKDSA 291

Query: 306 --LQQRKVGENACNSSGLRWMKDVVLGKRNDCSFRTVVVGDPDLALSEIGVPCQIAESLQ 363
              Q++      C   GLR+MKDV+LGKR+D +FRTVVVGDP L L+EIG+P  IA+ LQ
Sbjct: 292 NPYQKKSDTPKLC---GLRFMKDVLLGKRSDHTFRTVVVGDPSLKLNEIGIPESIAKRLQ 348

Query: 364 VSVYVNRENKKNLLDCCELRLLEKGHFKVCRKGRPVVLYKKKDLQIGDLLYRPLTDGD 421
           VS ++N+ NK+ L+      LL+     V R+G  +V  +  DLQ GD ++R L DGD
Sbjct: 349 VSEHLNQCNKERLVTSFVPTLLDNKEMHV-RRGDRLVAIQVNDLQTGDKIFRSLMDGD 405


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

 Score =  306 bits (784), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 181/418 (43%), Positives = 251/418 (60%), Gaps = 24/418 (5%)

Query: 13  DKFHEHNMPSGVITAIKFDVLTGEDIRTISALEIEAAGQVVCSDLGLPNSSEVCTTCGTN 72
           D   E  +P G +T+I F +    D   +S LE+EA  QV  S LGLPN   VC TCG+ 
Sbjct: 3   DDCEELQVPVGTLTSIGFSISNNNDRDKMSVLEVEAPNQVTDSRLGLPNPDSVCRTCGSK 62

Query: 73  DKKLCEGHFGAIKFPFSIVHPYFISEAAEILNKICPACKSIRCDLLIKGVKFLSVDKKLN 132
           D+K+CEGHFG I F +SI++PYF+ E A +LNKICP CK IR        +F   + +  
Sbjct: 63  DRKVCEGHFGVINFAYSIINPYFLKEVAALLNKICPGCKYIRKK------QFQITEDQPE 116

Query: 133 DCKYCSGISMGRYPTMKFRVSYNNLSRSPEIISEINDTASKKKTLGQR----LAADYWDF 188
            C+YC+ ++ G YP MKFRV+   + R   I+ E+N+ +  K  L +R    L  DYW F
Sbjct: 117 RCRYCT-LNTG-YPLMKFRVTTKEVFRRSGIVVEVNEESLMK--LKKRGVLTLPPDYWSF 172

Query: 189 IPNGSEEEESLVN---RRLSLSQVHHLLSDVDPDFIEKYVPRKSLLDLNYFPVTPNGHRV 245
           +P  S  +ES +    R ++ +QV+ LL  +D   I+K +P  + L L  FPVTPNG+RV
Sbjct: 173 LPQDSNIDESCLKPTRRIITHAQVYALLLGIDQRLIKKDIPMFNSLGLTSFPVTPNGYRV 232

Query: 246 TEFSHRPSNGPKLSFDDRTRACKKLVDFRGPAVELSSHVINSLSLSKLNPDKTPSNMFTE 305
           TE  H+  NG +L FD+RTR  KKLV F G  +ELSS V+  +  S+L  +   S+  + 
Sbjct: 233 TEIVHQ-FNGARLIFDERTRIYKKLVGFEGNTLELSSRVMECMQYSRLFSETVSSSKDSA 291

Query: 306 --LQQRKVGENACNSSGLRWMKDVVLGKRNDCSFRTVVVGDPDLALSEIGVPCQIAESLQ 363
              Q++      C   GLR+MKDV+LGKR+D +FRTVVVGDP L L+EIG+P  IA+ LQ
Sbjct: 292 NPYQKKSDTPKLC---GLRFMKDVLLGKRSDHTFRTVVVGDPSLKLNEIGIPESIAKRLQ 348

Query: 364 VSVYVNRENKKNLLDCCELRLLEKGHFKVCRKGRPVVLYKKKDLQIGDLLYRPLTDGD 421
           VS ++N+ NK+ L+      LL+     V R+G  +V  +  DLQ GD ++R L DGD
Sbjct: 349 VSEHLNQCNKERLVTSFVPTLLDNKEMHV-RRGDRLVAIQVNDLQTGDKIFRSLMDGD 405


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

 Score = 69.3 bits (168), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 111/446 (24%), Positives = 177/446 (39%), Gaps = 96/446 (21%)

Query: 23  GVITAIKFDVLTGEDI--RTISALEIEAAGQVVCSDLGLPNSSEVCTTCGTNDKKLCEGH 80
           G I  I F + +  +I  ++IS   I    Q+  + LGLP     C +CG  +   CEGH
Sbjct: 12  GEIVGITFALASHHEICIQSISESAINHPSQLTNAFLGLPLEFGKCESCGATEPDKCEGH 71

Query: 81  FGAIKFPFSIVHPYFISEAAEILNKICPACKSIRCDLLIKGVKFLSVDKKLND-CKYCSG 139
           FG I+ P  I HP  ++E  ++L+ +C  C  I+     KG      D+ L   C+  S 
Sbjct: 72  FGYIQLPVPIYHPAHVNELKQMLSLLCLKCLKIK---KAKGTSGGLADRLLGVCCEEASQ 128

Query: 140 ISMGRYPTMKFRVSYNNLSRSPEIISEINDTASK---KKTLGQRLAADYWDFIPNGSEEE 196
           IS      +K R S               D AS    K     RL    W+F+       
Sbjct: 129 IS------IKDRAS---------------DGASYLELKLPSRSRLQPGCWNFLERYGYRY 167

Query: 197 ESLVNRRLSLSQVHHLLSDVDPDFIEK-----YVPRKSLLDLNYFPVTPNGHRVTE---- 247
            S   R L   +V  +L  +  +  +K     ++P++  + L Y PV PN   V E    
Sbjct: 168 GSDYTRPLLAREVKEILRRIPEESRKKLTAKGHIPQEGYI-LEYLPVPPNCLSVPEASDG 226

Query: 248 FSHRPSNGPKLSFDDRTRACKKLVDFRGPAVELSSHVINSLSLSKLNPDKTPSNMFTELQ 307
           FS    +  ++   D  +    +   R       SH   +  + ++        + T LQ
Sbjct: 227 FSTMSVDPSRIELKDVLKKVIAIKSSRSGETNFESHKAEASEMFRV--------VDTYLQ 278

Query: 308 QRKVGENACN-------------SSGLRW---MKDVVLGKRNDCSFRTVVVGDPDLALSE 351
            R   + A N             SS   W   M+ + + K +  S R+V+ GD    ++E
Sbjct: 279 VRGTAKAARNIDMRYGVSKISDSSSSKAWTEKMRTLFIRKGSGFSSRSVITGDAYRHVNE 338

Query: 352 IGVPCQIAESL----QVSVYVNRENKKNLLD------------CCELRLLEKGHFKVCRK 395
           +G+P +IA+ +    +VSV+ NR   + L+D               LR   KGH      
Sbjct: 339 VGIPIEIAQRITFEERVSVH-NRGYLQKLVDDKLCLSYTQGSTTYSLRDGSKGH------ 391

Query: 396 GRPVVLYKKKDLQIGDLLYRPLTDGD 421
                     +L+ G +++R + DGD
Sbjct: 392 ---------TELKPGQVVHRRVMDGD 408