Jatropha Genome Database

JcCB0477071.10
Show Alignment:  
BLASTP 2.2.23 [Feb-03-2010]


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= JcCB0477071.10 + phase: 1 /partial
         (231 letters)

Database: Medicago_aa3.0 
           53,423 sequences; 12,992,982 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

IMGA|Medtr3g138340.1 RNA polymerase Rpb2, domain 4; RNA polymera...   258   2e-69
IMGA|Medtr1g028340.1 RNA polymerase Rpb2, domain 4; RNA polymera...    81   5e-16
IMGA|Medtr8g026950.1 RNA polymerase Rpb2, domain 6; RNA polymera...    49   2e-06

>IMGA|Medtr3g138340.1 RNA polymerase Rpb2, domain 4; RNA polymerase
           Rpb2, domain 5; DNA-directed RNA polymerase, beta
           subunit chr03_pseudomolecule_IMGAG_V3 35357572-35364917
           E EGN_Mt090430 20090702
          Length = 1188

 Score =  258 bits (659), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 136/229 (59%), Positives = 163/229 (71%), Gaps = 5/229 (2%)

Query: 7   DSRF---STQGRLEMLDTH-GENCGLVKNLAITGLVSTEILEPLIDILFDCGMDKLVDDT 62
           D+R+   S  G++  L T  GENCGLVKNLA+TG+VST++ E ++  L DCGM++LVDDT
Sbjct: 515 DARYPHPSHWGKVCFLSTPDGENCGLVKNLAVTGVVSTDVTESILPQLSDCGMEELVDDT 574

Query: 63  HTKLDEKYKVFLNGEWVGVCEDSNLFVAEXXXXXXXXXXXXQVEIKRDEQQKEVRIFADA 122
            T L +K KVFLNG+WVGVC DS  FVAE            QVEIKRD+ Q+EVRI +DA
Sbjct: 575 TTVLGKKDKVFLNGDWVGVCSDSISFVAELRTRRRRNELPHQVEIKRDQCQQEVRILSDA 634

Query: 123 GRILRPLLVVENLHKIKAFKGGNYTFQSLLDKXXXXXXXXXXXXDCSTAWGIKFLVAGVD 182
           GRILRPLLVV NL KIK  K  + +FQSLLD             D  TAWG+++L  G +
Sbjct: 635 GRILRPLLVVSNLLKIKGSKSEHKSFQSLLDNGVIELIGPEEEEDFKTAWGVQYLF-GKE 693

Query: 183 KKQPLKYTHCELDMSFLLGLSCGIIPFANHDHARRVLYQAQKHSQQAIG 231
            K  +KYTHCELDMSFLLGLSC ++PFANHDHARRVLYQ+QKHS QAIG
Sbjct: 694 GKSSVKYTHCELDMSFLLGLSCSLVPFANHDHARRVLYQSQKHSSQAIG 742


>IMGA|Medtr1g028340.1 RNA polymerase Rpb2, domain 4; RNA polymerase
           Rpb2, domain 5; DNA-directed RNA polymerase, beta
           subunit chr01_pseudomolecule_IMGAG_V3 6862609-6852751 E
           EGN_Mt090430 20090702
          Length = 1205

 Score = 80.9 bits (198), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 62/236 (26%), Positives = 109/236 (46%), Gaps = 31/236 (13%)

Query: 23  GENCGLVKNLAITGLVST-EILEPLIDILFDCGMDKLVDDTHTKLDEKYKVFLNGEWVGV 81
           G+ CGLVKNLA+   ++      P+++ L + G +   + +   + +  K+F+NG W+G+
Sbjct: 524 GQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWMGI 583

Query: 82  CEDSNLFVAEXXXXXXXXXX----------XXQVEIKRDEQQKEVRIFADAGRILRPLLV 131
             D ++ V                        +V + RD + KE+RI+ D GR  RPL +
Sbjct: 584 HRDPDMLVRTLRKLRRRFSAEGFDVVQVDVNTEVGVVRDIRLKELRIYTDYGRCSRPLFI 643

Query: 132 VE---------NLHKIKAFK----GGNYTFQSLLDKXXXXXXXXXXXXDCSTAWGIKFLV 178
           V+         ++H ++  +    GG   +  L+ K                +  I  LV
Sbjct: 644 VDKQRLLIKKKDIHSLQQRESPEDGG---WHDLVSKGFIEYIDTEEEETTMISMTINDLV 700

Query: 179 -AGVDKKQPLK--YTHCELDMSFLLGLSCGIIPFANHDHARRVLYQAQKHSQQAIG 231
            A ++ ++     YTHCE+  S +LG+   IIPF +H+ + R  YQ+    +QA+G
Sbjct: 701 QARLNPEEAYSDTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQS-AMGKQAMG 755


>IMGA|Medtr8g026950.1 RNA polymerase Rpb2, domain 6; RNA polymerase
           Rpb2, domain 4; RNA polymerase Rpb2, domain 5
           chr08_pseudomolecule_IMGAG_V3 5960319-5962829 H
           EGN_Mt090430 20090702
          Length = 222

 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 42/178 (23%), Positives = 72/178 (40%), Gaps = 17/178 (9%)

Query: 60  DDTHTKLDEKYKVFLNGEWVGVCEDSNLFVAEXXXXXXXXXXXXQVEIKRDEQQKEVRIF 119
           ++ HT     + V  NG  +G       F                V +  +E+Q  V + 
Sbjct: 7   EELHT--PNSFLVIFNGMILGKHRRPQRFATAMRKLRRACLIGEFVSVYVNEKQCCVYLA 64

Query: 120 ADAGRILRPLLVVEN------LHKIKAFKGGNYTFQSLLDKXXXXXXXXXXXXDCSTAWG 173
           +D GR+ RPL++ +N       H +K  K G   F+  L              +      
Sbjct: 65  SDGGRVCRPLVIADNGISRVKAHHMKELKDGVCAFRDFLRNGLIEYLDVNEENNA----- 119

Query: 174 IKFLVAGVDKKQPLKYTHCELDMSFLLGLSCGIIPFANHDHARRVLYQAQKHSQQAIG 231
              L+A  +K    + TH E++   +LG+  G+IP+ +H+ + R  YQ     +QA+G
Sbjct: 120 ---LIALYEKDATPETTHIEIEPFTILGVIAGLIPYPHHNQSPRNTYQCAM-GKQAMG 173