Miyakogusa Predicted Gene

Lj6g3v1707190.1
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= Lj6g3v1707190.1 Non Chatacterized Hit- tr|Q84JP3|Q84JP3_ARATH
Putative uncharacterized protein (Fragment)
OS=Arabido,45,3e-19,HRDC-like,HRDC-like; DNA-DIRECTED RNA POLYMERASE
II,NULL; RNA_pol_Rpb4,RNA polymerase II, Rpb4; DNA-,CUFF.59813.1
         (200 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AT4G15950.1 | Symbols: NRPD4, NRPE4, RDM2 | RNA polymerase II, R...   145   2e-35
AT5G09920.1 | Symbols: RPB15.9, ATRPB15.9, RPB15.9.9, NRPB4 | RN...    98   4e-21

>AT4G15950.1 | Symbols: NRPD4, NRPE4, RDM2 | RNA polymerase II,
           Rpb4, core protein | chr4:9040743-9041994 FORWARD
           LENGTH=205
          Length = 205

 Score =  145 bits (366), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 91/218 (41%), Positives = 124/218 (56%), Gaps = 35/218 (16%)

Query: 1   MSDKTGKGFTPFGKAGSLK----GKDDSTPKSAQGRKAQF---------------SKEGP 41
           MS+K GKG        SLK    GKD S+ K  +GRK  F               S + P
Sbjct: 1   MSEKGGKGLK-----SSLKSKDGGKDGSSTKLKKGRKIHFDQRTPPANYKILNVSSDQQP 55

Query: 42  FQSRMNGSPTPGGKGEKEDKAANGGKTS-GSQDLKIDRELPANVKCLMDCEAADILQGIQ 100
           FQS          K  K DK     K S  S +LK   +LP N +C+MDCEA  IL GI+
Sbjct: 56  FQSS-------AAKCGKSDKPTKSSKNSLHSFELK---DLPENAECMMDCEAFQILDGIK 105

Query: 101 EQMVTLSRDPTIKLPGPFDKGLQYAKSSSKYTNAKSIRRIVEPLANNGLTDCEVCVIANV 160
            Q+V LS DP+IK+P  +D+ L Y +S   YTN +S+R+++EPL   G++D E+CVIAN 
Sbjct: 106 GQLVGLSEDPSIKIPVSYDRALAYVESCVHYTNPQSVRKVLEPLKTYGISDGEMCVIANA 165

Query: 161 CPETVDEIYALLPSLKGKINLNRQLLEDSVNELAKLRR 198
             E+VDE+ A +PSLK K  +  Q L+D++ EL+KL++
Sbjct: 166 SSESVDEVLAFIPSLKTKKEVINQPLQDALEELSKLKK 203


>AT5G09920.1 | Symbols: RPB15.9, ATRPB15.9, RPB15.9.9, NRPB4 | RNA
           polymerase II, Rpb4, core protein | chr5:3096276-3097370
           FORWARD LENGTH=138
          Length = 138

 Score = 97.8 bits (242), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 56/144 (38%), Positives = 89/144 (61%), Gaps = 11/144 (7%)

Query: 56  GEKEDKAANGGKTSGSQDLKIDRELPANVKCLMDCEAADILQGIQEQMVTLSRDPTIKLP 115
           GE+E+ AA         +LKI  E     KCLM+CE + IL+   EQ+  +S DP  ++ 
Sbjct: 3   GEEEENAA---------ELKIGDEF-LKAKCLMNCEVSLILEHKFEQLQQISEDPMNQVS 52

Query: 116 GPFDKGLQYAKSSSKYTNAKSIRRIVEPLANNGLTDCEVCVIANVCPETVDEIYALLPSL 175
             F+K LQY K  S+Y N  ++R++ E L+ + LT+ E+CV+ N+CPETV+E  A++PSL
Sbjct: 53  QVFEKSLQYVKRFSRYKNPDAVRQVREILSRHQLTEFELCVLGNLCPETVEEAVAMVPSL 112

Query: 176 KGKINLN-RQLLEDSVNELAKLRR 198
           K K   +  + +E  +N+L+ ++R
Sbjct: 113 KTKGRAHDDEAIEKMLNDLSLVKR 136