Miyakogusa Predicted Gene

Lj0g3v0206989.2

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= Lj0g3v0206989.2 tr|B9IDF9|B9IDF9_POPTR DNA-directed RNA
polymerase (Fragment) OS=Populus trichocarpa
GN=POPTRDRAFT_9,75.51,0,beta and beta-prime subunits of DNA dependent
RNA-polymerase,NULL; seg,NULL; RNA_pol_Rpb2_1,RNA poly,CUFF.13386.2
         (486 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AT5G45140.1 | Symbols: NRPC2 | nuclear RNA polymerase C2 | chr5:...   685   0.0  
AT4G21710.1 | Symbols: NRPB2, EMB1989, RPB2 | DNA-directed RNA p...   238   9e-63
AT3G18090.1 | Symbols: NRPD2B | nuclear RNA polymerase D2B | chr...   145   7e-35
AT3G23780.2 | Symbols: NRPD2A | nuclear RNA polymerase D2A | chr...   141   1e-33
AT3G23780.1 | Symbols: NRPD2A, DRD2, NRPD2, DMS2, NRPE2 | nuclea...   141   1e-33
AT1G29940.1 | Symbols: NRPA2 | nuclear RNA polymerase A2 | chr1:...    73   5e-13

>AT5G45140.1 | Symbols: NRPC2 | nuclear RNA polymerase C2 |
           chr5:18247416-18257713 REVERSE LENGTH=1161
          Length = 1161

 Score =  685 bits (1768), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 332/487 (68%), Positives = 394/487 (80%), Gaps = 5/487 (1%)

Query: 1   MPVMLRSCRCVLYEKDEAELAKLGECPLDPGGYFVIKGNEKVILIQEQLSKNRIIIVMDK 60
           MP+MLRSCRCVL+ KDE ELA+LGECPLDPGGYF+IKG EKV+LIQEQLSKNRIII  DK
Sbjct: 145 MPIMLRSCRCVLHGKDEEELARLGECPLDPGGYFIIKGTEKVLLIQEQLSKNRIIIDSDK 204

Query: 61  NRNIXXXXXXXXXXXXXXXDIVMEKEKMWLKLNRFAKQVPLMVVMKAMGMESDQEVVQMV 120
             NI                I MEKEK++L L+RF K++P+++V+KAMGMESDQE+VQMV
Sbjct: 205 KGNINASVTSSTEMTKSKTVIQMEKEKIYLFLHRFVKKIPIIIVLKAMGMESDQEIVQMV 264

Query: 121 GRDPRYSLLLLPSFEECAQNGVYTQEQALAHLDSKVKRSMFSNISSEKEGRGSPALKVLE 180
           GRDPR+S  LLPS EEC   GV TQ+QAL +L++KVK+  +     EK+GR   AL +L 
Sbjct: 265 GRDPRFSASLLPSIEECVSEGVNTQKQALDYLEAKVKKISYGT-PPEKDGR---ALSILR 320

Query: 181 EEFLSNIPVHQGNFRLKCIYAAVMMRRIMDAILNKDAMDDKDYVGNKRLELSGQLISLLF 240
           + FL+++PV   NFR KC Y  VM+RR+++A+LNKDAMDDKDYVGNKRLELSGQLISLLF
Sbjct: 321 DLFLAHVPVPDNNFRQKCFYVGVMLRRMIEAMLNKDAMDDKDYVGNKRLELSGQLISLLF 380

Query: 241 EDRFKTMGEQVRNSSDKLLDKPDKANRFDISSVLARHQDL-ITHGLESTLSTGNFEIRRF 299
           ED FKTM  +   + D +L+KP +A+RFD S  L +     I+ GLE TLSTGNF+I+RF
Sbjct: 381 EDLFKTMLSEAIKNVDHILNKPIRASRFDFSQCLNKDSRYSISLGLERTLSTGNFDIKRF 440

Query: 300 RMERKGMTQVLQRLSFIGFLGQMTRVSPQFEKSRKVSGPRALQPSQWGMLCPCDTPEGEA 359
           RM RKGMTQVL RLSFIG +G +T++SPQFEKSRKVSGPR+LQPSQWGMLCPCDTPEGE+
Sbjct: 441 RMHRKGMTQVLTRLSFIGSMGFITKISPQFEKSRKVSGPRSLQPSQWGMLCPCDTPEGES 500

Query: 360 CGLVKNLALMTHVTTDEEEAPLISLCYYLGVEDMEYLSGEELHTPDSFLVIFNGLILGKH 419
           CGLVKNLALMTHVTTDEEE PL+++CY LGV D+E LS EELHTPDSFLVI NGLILGKH
Sbjct: 501 CGLVKNLALMTHVTTDEEEGPLVAMCYKLGVTDLEVLSAEELHTPDSFLVILNGLILGKH 560

Query: 420 RRPRGFVTAMRKLRRAGKIGEFVSVYVNEKQGCVYLASDGGRVCRPLVIADNGISRIKEY 479
            RP+ F  ++R+LRRAGKIGEFVSV+ NEKQ CVY+ASD GRVCRPLVIAD GISR+K++
Sbjct: 561 SRPQYFANSLRRLRRAGKIGEFVSVFTNEKQHCVYVASDVGRVCRPLVIADKGISRVKQH 620

Query: 480 HMKELMD 486
           HMKEL D
Sbjct: 621 HMKELQD 627


>AT4G21710.1 | Symbols: NRPB2, EMB1989, RPB2 | DNA-directed RNA
           polymerase family protein | chr4:11535684-11542200
           REVERSE LENGTH=1188
          Length = 1188

 Score =  238 bits (606), Expect = 9e-63,   Method: Compositional matrix adjust.
 Identities = 153/491 (31%), Positives = 250/491 (50%), Gaps = 35/491 (7%)

Query: 1   MPVMLRSCRCVLYEKDEAELAKLGECPLDPGGYFVIKGNEKVILIQEQLSKNRIIIV--- 57
           +P+MLRS  C L++  E +L +LGECP D GGYF+I G+EKV++ QE++S N + +    
Sbjct: 158 VPIMLRSSYCTLFQNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKR 217

Query: 58  -------------MDKNRNIXXXXXXXXXXXXXXXDIVMEKEKMWLKLNRFAKQVPLMVV 104
                        M +N+N                      + +   L     ++P+++V
Sbjct: 218 QPNKYAYVGEVRSMAENQNRPPSTMFVRMLARASAKGGSSGQYIRCTLPYIRTEIPIIIV 277

Query: 105 MKAMGMESDQEVVQMVG---RDPRYSLLLLPSFEECAQNGVYTQEQALAHLDSKVKRSMF 161
            +A+G  +D+++++ +     D +   LL PS EE      +  +  L  LD   KR   
Sbjct: 278 FRALGFVADKDILEHICYDFADTQMMELLRPSLEEA-----FVIQNQLVALDYIGKRG-- 330

Query: 162 SNISSEKEGRGSPALKVLEEEFLSNIPVHQGNFRLKCIYAAVMMRRIMDAILNKDAMDDK 221
           + +   KE R   A  +L++E L ++ + +     K  Y   ++ R++   L +   DD+
Sbjct: 331 ATVGVTKEKRIKYARDILQKEMLPHVGIGEHCETKKAYYFGYIIHRLLLCALGRRPEDDR 390

Query: 222 DYVGNKRLELSGQLISLLFEDRFKTMGEQVRNSSDKLLDKPDKAN-RFDISSVLARHQDL 280
           D+ GNKRL+L+G L+  LF   F+ +   VR+   K +D   + N +F I +        
Sbjct: 391 DHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRSYVQKCVDNGKEVNLQFAIKA------KT 444

Query: 281 ITHGLESTLSTGNFEIRRFRMERKGMTQVLQRLSFIGFLGQMTRVSPQFEKSRKVSGPRA 340
           IT GL+ +L+TGN+        R G++QVL RL++   L  + R++    +  K++ PR 
Sbjct: 445 ITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQ 504

Query: 341 LQPSQWGMLCPCDTPEGEACGLVKNLALMTHVTTDEEEAPLISLCYYLGVEDMEYLSGEE 400
           L  SQWGM+CP +TPEG+ACGLVKNLALM ++T      P++      G E+ E +S   
Sbjct: 505 LHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPSV 564

Query: 401 LHTPDSFLVIFNGLILGKHRRPRGFVTAMRKLRRAGKIGEFVSVYVNEKQGCVYLASDGG 460
           +  P +  +  NG+ +G HR P   V  +R+LRR   +   V V  + +   + + +D G
Sbjct: 565 I--PQATKIFVNGMWVGVHRDPDMLVKTLRRLRRRVDVNTEVGVVRDIRLKELRIYTDYG 622

Query: 461 RVCRPLVIADN 471
           R  RPL I DN
Sbjct: 623 RCSRPLFIVDN 633


>AT3G18090.1 | Symbols: NRPD2B | nuclear RNA polymerase D2B |
           chr3:6195323-6200204 FORWARD LENGTH=1055
          Length = 1055

 Score =  145 bits (366), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 143/516 (27%), Positives = 235/516 (45%), Gaps = 66/516 (12%)

Query: 1   MPVMLRSCRCVLYEKDEAELAKLGECPLDPGGYFVIKGNEKVILIQEQLSKNRIIIV--- 57
           +PVM++S  C   EK + E  K G C  D GGYFVIKG EKV + QEQ+   R+ I    
Sbjct: 58  IPVMVKSVLCKTSEKGK-ENCKKGNCAFDQGGYFVIKGAEKVFIAQEQMCTKRLWISNSP 116

Query: 58  --------MDKNRNIXXXXXXXXXXXXXXXDIVMEKEKMWLKLNRFAKQVPLMVVMKAMG 109
                     +NR I                 +MEK    L +   + ++P+ ++  A+G
Sbjct: 117 WTVSFRSETKRNRFIVRLSENEKAEDYK----IMEK---VLTVYFLSTEIPVWLLFFALG 169

Query: 110 MESDQEVVQMV---GRDPRYSLLLLPSFEECAQ--NGVYTQEQALAHLDSKVKRSMFSNI 164
           + SD+E + ++   G D   +  L+ S  E             AL +++ ++K + F   
Sbjct: 170 VSSDKEAMDLIAFDGDDASITNSLIASIHEADAVCEAFRCGNNALTYVEHQIKSTKFP-- 227

Query: 165 SSEKEGRGSPALKVLEEEFLSNIPVHQGNFRLKCIYAAVMMRRIMDAILNKDAMDDKDYV 224
                    PA  V +   L   P  QG  + K  +   M++ ++ A   K   +++D  
Sbjct: 228 ---------PAESVDDCLRLYLFPCLQG-LKKKARFLGYMVKCLLSAYAGKRKCENRDSF 277

Query: 225 GNKRLELSGQL------ISLLFEDRFKTMGEQVRNSSDKLLDKPDKANRFDISSVLARHQ 278
            NKR+EL+G+L      + L    R  T   Q + S D  L KP + +  D S       
Sbjct: 278 RNKRIELAGELLEREIRVHLAHARRKMTRAMQKQLSGDGDL-KPIE-HYLDAS------- 328

Query: 279 DLITHGLESTLSTGNFEIRRFRMER-KGMTQVLQRLSFIGFLGQMTRVSPQFEKSRKVSG 337
            +IT+GL    STG +     +MER  G+   L R + +  L  + R   Q   + KV  
Sbjct: 329 -VITNGLNRAFSTGAWSHPFRKMERVSGVVANLGRANPLQTLIDLRRTRQQVLYTGKVGD 387

Query: 338 PRALQPSQWGMLCPCDTPEGEACGLVKNLALMTHVTTDEEEAPLISLCYYLGVEDMEYLS 397
            R   PS WG +C   TP+GE CGLVKN++L+  V+T   E+ ++ + +  G+E++    
Sbjct: 388 ARHPHPSHWGRVCFLSTPDGENCGLVKNMSLLGLVSTQGLES-VVEMLFTCGMEELM--- 443

Query: 398 GEELHTP--DSFLVIFNGLILGKHRRPRGFVTAMRKLRRAGKIGEFVSVYVNEKQGCVYL 455
             +  TP      V+ NG  +G       FV  ++  RR  ++   + +  ++    V +
Sbjct: 444 -NDTSTPLCGKHKVLLNGDWVGLCADSESFVGELKSRRRQSELPLEMEIKRDKDDNEVRI 502

Query: 456 ASDGGRVCRPLVIADNGISRIK-----EYHMKELMD 486
            +D GR+ RPL++ +N + ++K     +Y  K L+D
Sbjct: 503 FTDAGRLLRPLLVVEN-LHKLKQDKPTQYPFKHLLD 537


>AT3G23780.2 | Symbols: NRPD2A | nuclear RNA polymerase D2A |
           chr3:8567971-8573819 REVERSE LENGTH=1172
          Length = 1172

 Score =  141 bits (355), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 135/491 (27%), Positives = 227/491 (46%), Gaps = 50/491 (10%)

Query: 1   MPVMLRSCRCVLYEKDEAELAKLGECPLDPGGYFVIKGNEKVILIQEQLSKNRIII---- 56
           +PVM++S  C   EK + E  K G+C  D GGYFVIKG EKV + QEQ+   R+ I    
Sbjct: 176 IPVMVKSILCKTSEKGK-ENCKKGDCAFDQGGYFVIKGAEKVFIAQEQMCTKRLWISNSP 234

Query: 57  --VMDKNRNIXXXXXXXXXXXXXXXDIVMEKEKMWLKLNRFAKQVPLMVVMKAMGMESDQ 114
             V  ++ N                D    +EK+ L +   + ++P+ ++  A+G+ SD+
Sbjct: 235 WTVSFRSENKRNRFIVRLSENEKAEDY-KRREKV-LTVYFLSTEIPVWLLFFALGVSSDK 292

Query: 115 EVVQMV---GRDPRYSLLLLPSFE--ECAQNGVYTQEQALAHLDSKVKRSMFSNISSEKE 169
           E + ++   G D   +  L+ S    +           AL +++ ++K + F        
Sbjct: 293 EAMDLIAFDGDDASITNSLIASIHVADAVCEAFRCGNNALTYVEQQIKSTKFP------- 345

Query: 170 GRGSPALKVLEEEFLSNIPVHQGNFRLKCIYAAVMMRRIMDAILNKDAMDDKDYVGNKRL 229
               PA  V E   L   P  Q + + K  +   M++ ++++   K   +++D   NKR+
Sbjct: 346 ----PAESVDECLHLYLFPGLQ-SLKKKARFLGYMVKCLLNSYAGKRKCENRDSFRNKRI 400

Query: 230 ELSGQL------ISLLFEDRFKTMGEQVRNSSDKLLDKPDKANRFDISSVLARHQDLITH 283
           EL+G+L      + L    R  T   Q   S D  L KP + +  D S        +IT+
Sbjct: 401 ELAGELLEREIRVHLAHARRKMTRAMQKHLSGDGDL-KPIE-HYLDAS--------VITN 450

Query: 284 GLESTLSTGNFEIRRFRMER-KGMTQVLQRLSFIGFLGQMTRVSPQFEKSRKVSGPRALQ 342
           GL    STG +     +MER  G+   L R + +  L  + R   Q   + KV   R   
Sbjct: 451 GLSRAFSTGAWSHPFRKMERVSGVVANLGRANPLQTLIDLRRTRQQVLYTGKVGDARYPH 510

Query: 343 PSQWGMLCPCDTPEGEACGLVKNLALMTHVTTDEEEAPLISLCYYLGVEDMEYLSGEELH 402
           PS WG +C   TP+GE CGLVKN++L+  V+T   E+ ++   +  G+E++     ++  
Sbjct: 511 PSHWGRVCFLSTPDGENCGLVKNMSLLGLVSTQSLES-VVEKLFACGMEELM----DDTC 565

Query: 403 TP--DSFLVIFNGLILGKHRRPRGFVTAMRKLRRAGKIGEFVSVYVNEKQGCVYLASDGG 460
           TP      V+ NG  +G       FV  ++  RR  ++   + +  ++    V + +D G
Sbjct: 566 TPLFGKHKVLLNGDWVGLCADSESFVAELKSRRRQSELPREMEIKRDKDDNEVRIFTDAG 625

Query: 461 RVCRPLVIADN 471
           R+ RPL++ +N
Sbjct: 626 RLLRPLLVVEN 636


>AT3G23780.1 | Symbols: NRPD2A, DRD2, NRPD2, DMS2, NRPE2 | nuclear
           RNA polymerase D2A | chr3:8567971-8573819 REVERSE
           LENGTH=1172
          Length = 1172

 Score =  141 bits (355), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 135/491 (27%), Positives = 227/491 (46%), Gaps = 50/491 (10%)

Query: 1   MPVMLRSCRCVLYEKDEAELAKLGECPLDPGGYFVIKGNEKVILIQEQLSKNRIII---- 56
           +PVM++S  C   EK + E  K G+C  D GGYFVIKG EKV + QEQ+   R+ I    
Sbjct: 176 IPVMVKSILCKTSEKGK-ENCKKGDCAFDQGGYFVIKGAEKVFIAQEQMCTKRLWISNSP 234

Query: 57  --VMDKNRNIXXXXXXXXXXXXXXXDIVMEKEKMWLKLNRFAKQVPLMVVMKAMGMESDQ 114
             V  ++ N                D    +EK+ L +   + ++P+ ++  A+G+ SD+
Sbjct: 235 WTVSFRSENKRNRFIVRLSENEKAEDY-KRREKV-LTVYFLSTEIPVWLLFFALGVSSDK 292

Query: 115 EVVQMV---GRDPRYSLLLLPSFE--ECAQNGVYTQEQALAHLDSKVKRSMFSNISSEKE 169
           E + ++   G D   +  L+ S    +           AL +++ ++K + F        
Sbjct: 293 EAMDLIAFDGDDASITNSLIASIHVADAVCEAFRCGNNALTYVEQQIKSTKFP------- 345

Query: 170 GRGSPALKVLEEEFLSNIPVHQGNFRLKCIYAAVMMRRIMDAILNKDAMDDKDYVGNKRL 229
               PA  V E   L   P  Q + + K  +   M++ ++++   K   +++D   NKR+
Sbjct: 346 ----PAESVDECLHLYLFPGLQ-SLKKKARFLGYMVKCLLNSYAGKRKCENRDSFRNKRI 400

Query: 230 ELSGQL------ISLLFEDRFKTMGEQVRNSSDKLLDKPDKANRFDISSVLARHQDLITH 283
           EL+G+L      + L    R  T   Q   S D  L KP + +  D S        +IT+
Sbjct: 401 ELAGELLEREIRVHLAHARRKMTRAMQKHLSGDGDL-KPIE-HYLDAS--------VITN 450

Query: 284 GLESTLSTGNFEIRRFRMER-KGMTQVLQRLSFIGFLGQMTRVSPQFEKSRKVSGPRALQ 342
           GL    STG +     +MER  G+   L R + +  L  + R   Q   + KV   R   
Sbjct: 451 GLSRAFSTGAWSHPFRKMERVSGVVANLGRANPLQTLIDLRRTRQQVLYTGKVGDARYPH 510

Query: 343 PSQWGMLCPCDTPEGEACGLVKNLALMTHVTTDEEEAPLISLCYYLGVEDMEYLSGEELH 402
           PS WG +C   TP+GE CGLVKN++L+  V+T   E+ ++   +  G+E++     ++  
Sbjct: 511 PSHWGRVCFLSTPDGENCGLVKNMSLLGLVSTQSLES-VVEKLFACGMEELM----DDTC 565

Query: 403 TP--DSFLVIFNGLILGKHRRPRGFVTAMRKLRRAGKIGEFVSVYVNEKQGCVYLASDGG 460
           TP      V+ NG  +G       FV  ++  RR  ++   + +  ++    V + +D G
Sbjct: 566 TPLFGKHKVLLNGDWVGLCADSESFVAELKSRRRQSELPREMEIKRDKDDNEVRIFTDAG 625

Query: 461 RVCRPLVIADN 471
           R+ RPL++ +N
Sbjct: 626 RLLRPLLVVEN 636


>AT1G29940.1 | Symbols: NRPA2 | nuclear RNA polymerase A2 |
           chr1:10479322-10486670 REVERSE LENGTH=1178
          Length = 1178

 Score = 72.8 bits (177), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 98/427 (22%), Positives = 172/427 (40%), Gaps = 79/427 (18%)

Query: 1   MPVMLRSCRCVLYEKDEAELAKLGECPLDPGGYFVIKGNEKVILIQEQLSKNRIIIVMDK 60
            P+ML S  C L   D  +L K  E   + GGYF++ G E+V          R +I   +
Sbjct: 124 FPIMLMSKLCSLKGADCRKLLKCKESTSEMGGYFILNGIERVF---------RCVIAPKR 174

Query: 61  N------RNIXXXXXXXXXXXXXXXDIVMEKE-----KMWLKLNRFAKQ----------V 99
           N      RN                  V + +     K++   N  A+           +
Sbjct: 175 NHPTSMIRNSFRDRKEGYSSKAVVTRCVRDDQSSVTVKLYYLRNGSARVGFWIVGREYLL 234

Query: 100 PLMVVMKAMGMESDQEVVQMV--------GRDP----------RYSLLLLPSFEECAQNG 141
           P+ +V+KA+    D+E+ + +        GR            R  ++L    +E    G
Sbjct: 235 PVGLVLKALTNSCDEEIYESLNCCYSEHYGRGDGAIGTQLVRERAKIIL----DEVRDLG 290

Query: 142 VYTQEQALAHLDSKVKRSMFSNISSEKEGRGSPALKVLEEEFLSN-IPVHQGNFRLKCIY 200
           ++T+EQ   HL    +  +        +G    +L ++ E  L + + VH  N   K   
Sbjct: 291 LFTREQCRKHLGQHFQPVL--------DGVKKESLSIVAEAVLRDYLFVHLDNDHDKFNL 342

Query: 201 AAVMMRRIMDAILNKDAMDDKDYVGNKRLELSGQLISLLFEDRFKTMGEQVRNSSDKLLD 260
              +++++   +      D+ D + N+ + + G +I++  +++ +   E +R     L D
Sbjct: 343 LIFIIQKLYSLVDQTSLPDNPDSLQNQEILVPGHVITIYLKEKLE---EWLRKCKSLLKD 399

Query: 261 KPDKAN-RFDISSVLARHQDLITH--------GLESTLSTGNFEIRRFR--MERKGMTQV 309
           + D  N +F   S LA  + LI           +E+ L TG  + +      +R G T  
Sbjct: 400 ELDNTNSKFSFES-LADVKKLINKNPPRSIGTSIETLLKTGALKTQSGLDLQQRAGYTVQ 458

Query: 310 LQRLSFIGFLGQMTRV--SPQFEKSRKVSGPRALQPSQWGMLCPCDTPEGEACGLVKNLA 367
            +RL+F+ FL     V     F   R  +  R L P  WG LCP  TP+G  CGL+ ++ 
Sbjct: 459 AERLNFLRFLSFFRAVHRGASFAGLRTTT-VRKLLPESWGFLCPVHTPDGTPCGLLNHMT 517

Query: 368 LMTHVTT 374
             + +T+
Sbjct: 518 RTSRITS 524