Jatropha Genome Database

JcCB0231591.10
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= JcCB0231591.10 + phase: 1 /pseudo/partial
         (158 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...   142   6e-35

>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 =  142 bits (359), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 87/167 (52%), Positives = 99/167 (59%), Gaps = 18/167 (10%)

Query: 1    EKVCNDRTGEMVHSLIFMGPTFYQQLVHMA*DKVKFTQHGAC-PSTYQAVCCRPEAFWWY 59
            E+V N RTGEMV SLIFMGPTFYQ+L HM+ DKVKF   G   P T Q V  R       
Sbjct: 1031 ERVYNGRTGEMVRSLIFMGPTFYQRLHHMSEDKVKFRNTGPVHPLTRQPVADRKRF---- 1086

Query: 60   QVW*DGA*LPHSSR--CICKPA*ATFYSQRL--LADAYL----PDCKNFTNVIERTVPQS 111
                 G       R   I   A A  Y +RL  L+D+        CKN  NVI R V   
Sbjct: 1087 ----GGIKFGEMERDCLIAHGASANLY-ERLFTLSDSSQIHICSKCKNVANVILRPVSGG 1141

Query: 112  RKIKAPYCRICESADDTVKVNLPYGAKVLCQELFSMGISLKFETQLC 158
            RKI+ PYCR CESADD V  ++PYGAK+L QELFSMGI+LKFET+LC
Sbjct: 1142 RKIRGPYCRFCESADDIVVASVPYGAKLLSQELFSMGINLKFETELC 1188