Miyakogusa Predicted Gene

Lj4g3v2180370.2

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= Lj4g3v2180370.2 tr|A9RV94|A9RV94_PHYPA Predicted protein
OS=Physcomitrella patens subsp. patens
GN=PHYPADRAFT_161188,37.1,6e-18,RNA_pol_Rpc4,RNA polymerase III Rpc4;
seg,NULL; SUBFAMILY NOT NAMED,NULL; DNA-DIRECTED RNA
POLYMERAS,CUFF.50439.2
         (296 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AT5G09380.1 | Symbols:  | RNA polymerase III RPC4 | chr5:2911313...   221   3e-58
AT4G25180.1 | Symbols:  | RNA polymerase III RPC4 | chr4:1291174...   158   4e-39

>AT5G09380.1 | Symbols:  | RNA polymerase III RPC4 |
           chr5:2911313-2913136 REVERSE LENGTH=272
          Length = 272

 Score =  221 bits (564), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 123/283 (43%), Positives = 175/283 (61%), Gaps = 20/283 (7%)

Query: 16  RKVKFAPRAPPRRXXXXXXXXXXXXD-TDANVAKDLLRRLNEGKLRH-KVEKKVSGSQIA 73
           RK+KFAP+APP+R            D +++  A +LLRR+NE  LR  K +KKV  SQ+A
Sbjct: 8   RKMKFAPKAPPKRVPKPEVKPEVVEDNSNSAQASELLRRVNERSLRKPKADKKVPASQVA 67

Query: 74  FGDGGVASSIKSYGFPRGGSSASDGQNSEFNGKPQKEYKEPWDYYSEYPTTLPLRRPYSG 133
           +  GGV +S +S  +    + A    +++     + EYKEPWDYYS YP TLP+RRPY+G
Sbjct: 68  WL-GGVVNSTRSNKYLNRSNGAYGSTSTQ-----EIEYKEPWDYYSYYPITLPMRRPYAG 121

Query: 134 NPEYLDEEEFGEAAESRTYDEDSANSAVELGLLEENPETSMFLMRLPTLPIPKQSATAGG 193
           +PE LD EEF +A     + EDS N+A  LGL+E++ E  MF MRLP++P+   ++T   
Sbjct: 122 DPEVLDVEEFMQAG---GHHEDSLNTAANLGLMEDSGEQKMFFMRLPSVPL---ASTPTE 175

Query: 194 KGDNGNNTKRPEGSKDXXXXXXXXXXXXXAGYMGKMVVYKSGAVKLKLGDTLYDVSSGMN 253
             +   N K P   K               GYMGK++VYKSGAVK+KLG+ LYDVS G+ 
Sbjct: 176 NLETRPNIKGPVEKK------TVDLKALPEGYMGKLLVYKSGAVKMKLGEVLYDVSPGLK 229

Query: 254 CSFAQDLVTINTAKKDCCAVGEISKCATITPNVDSLLDSLAGL 296
             FAQD++ +NT +K+CC VG++ K A +TP++DS+L  +  +
Sbjct: 230 SEFAQDVMVVNTEQKNCCLVGDVYKHAVLTPDIDSILKDIENI 272


>AT4G25180.1 | Symbols:  | RNA polymerase III RPC4 |
           chr4:12911746-12913907 REVERSE LENGTH=311
          Length = 311

 Score =  158 bits (400), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 111/325 (34%), Positives = 163/325 (50%), Gaps = 47/325 (14%)

Query: 1   MDLGSSKDAPGGGGRRKVKFAPRAPPRRXXXXXXXXXXXXDTDANV--AKDLLRRLNEGK 58
           MD G  K       +R+ +  P  P RR            + + N+  ++   RR+  G+
Sbjct: 1   MDSGEQK------SKRRFQPNPPRPSRRLPIAPTSNTEAEEDEENIKASRQFDRRI-VGR 53

Query: 59  LRHKVEKKVSGSQIAFGDGGVASSIKSYGFPR-------------------GGSSASDGQ 99
            R K E K S  ++AF       +I+S+G P+                     SS +  Q
Sbjct: 54  -RPKTETKASSPEVAFQPSLSPLAIRSFGVPKEDDKPNSDVNPSSPASILPAVSSVTAAQ 112

Query: 100 N-----SEFNGKPQKEYKEPWDYY-SEYPTTLPLRRPYSGNPEYLDEEEFGEAAESRTYD 153
                   F  +   +Y EPWDY  S YPT LPLR+P SG+ E LD+EEFGE A++R YD
Sbjct: 113 EDGEEVHNFVTRTGDDYVEPWDYRNSYYPTVLPLRKPNSGDIELLDQEEFGEVAKNRDYD 172

Query: 154 EDSANSAVELGLLE-ENPETSMFLMRLP-TLPIPKQSATAGGKGDNGNNTKRPEGSKDXX 211
           E++ NSA ELGL   ++ +  MF+ ++P  LP+ KQ+         G  TKR    ++  
Sbjct: 173 ENTINSAEELGLTSVQHSKKQMFIFKIPDCLPVVKQTT--------GATTKR--SVREYS 222

Query: 212 XXXXXXXXXXXAGYMGKMVVYKSGAVKLKLGDTLYDVSSGMNCSFAQDLVTINTAKKDCC 271
                       G+MGKM+VYKSGAVKLK+GD L+DVS G       D+V I+   ++C 
Sbjct: 223 SGISNPFEGLPEGFMGKMLVYKSGAVKLKVGDALFDVSPGPGTKIPNDVVAIDIKGRNCS 282

Query: 272 AVGEISKCATITPNVDSLLDSLAGL 296
            +G  +K  T+TP+V+SLL+  + +
Sbjct: 283 RIGSSAKFVTVTPDVESLLNPASDM 307