BLASTX 1.4.13-Paracel [2002-12-12]

Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
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.

Query= PTA.CL.0.cl.003.Contig1
         (510 letters)

Database: BlastDB/NCBI/blast/db/2003_02_17_02_00_1/nr 
           1,339,046 sequences; 429,188,541 total letters

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


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|AAM61374.1|  RNA polymerase II subunit (hsRPB10), putativ...   124   5e-28
sp|Q39290|RPBX_BRANA  DNA-directed RNA polymerase II 8.2 kDa...   123   1e-27
ref|NP_176363.1|  RNA polymerase II subunit (hsRPB10), putat...   115   2e-25
ref|NP_066951.1|  DNA directed RNA polymerase II polypeptide...   103   1e-21
gb|EAA00426.1|  agCP9910 [Anopheles gambiae str. PEST]            103   1e-21

>gb|AAM61374.1| RNA polymerase II subunit (hsRPB10), putative [Arabidopsis
           thaliana]|gi|26451764|dbj|BAC42977.1| putative RNA
           polymerase II subunit hsRPB10 [Arabidopsis thaliana]
          Length = 71

 Score =  124 bits (312), Expect = 5e-28
 Identities = 60/71 (84%), Positives = 60/71 (84%)
 Frame = +2

Query: 122 MIIPVRCFTCGKVIGNKWXXXXXXXXXXXTEGDALDALQLVRYCCRRMLMTHVDLIEKLL 301
           MIIPVRCFTCGKVIGNKW           TEGDALDALQLVRYCCRRMLMTHVDLIEKLL
Sbjct: 1   MIIPVRCFTCGKVIGNKWDQYLDLLQLDYTEGDALDALQLVRYCCRRMLMTHVDLIEKLL 60

Query: 302 NYNTLEKSDNS 334
           NYNTLEKSDNS
Sbjct: 61  NYNTLEKSDNS 71



>sp|Q39290|RPBX_BRANA DNA-directed RNA polymerase II 8.2 kDa polypeptide (RPB10) (RP10)
           (ABC10)|gi|7447619|pir||T07852 probable DNA-directed RNA
           polymerase (EC 2.7.7.6) II chain RPB10 -
           rape|gi|533690|gb|AAA21279.1| RNA polymerase II subunit
           RPB10 homolog; similar to yeast RNA polymerase II
           subunit RPB10, Swiss-Prot Accession Number P22139
          Length = 71

 Score =  123 bits (308), Expect = 1e-27
 Identities = 59/71 (83%), Positives = 59/71 (83%)
 Frame = +2

Query: 122 MIIPVRCFTCGKVIGNKWXXXXXXXXXXXTEGDALDALQLVRYCCRRMLMTHVDLIEKLL 301
           MIIPVRCFTCGKVIGNKW           TEGDALDAL LVRYCCRRMLMTHVDLIEKLL
Sbjct: 1   MIIPVRCFTCGKVIGNKWDAYLDLLQLDYTEGDALDALNLVRYCCRRMLMTHVDLIEKLL 60

Query: 302 NYNTLEKSDNS 334
           NYNTLEKSDNS
Sbjct: 61  NYNTLEKSDNS 71



>ref|NP_176363.1| RNA polymerase II subunit (hsRPB10), putative; protein id:
           At1g61700.1 [Arabidopsis
           thaliana]|gi|11134747|sp|Q9SYA6|RPBX_ARATH DNA-directed
           RNA polymerase II 8.2 kDa polypeptide (RPB10) (RP10)
           (ABC10)|gi|25314518|pir||F96642 protein Putative RNA
           polymerase II subunit Rpb10 [imported] - Arabidopsis
           thaliana|gi|4508082|gb|AAD21426.1| Putative RNA
           polymerase II subunit Rpb10 [Arabidopsis thaliana]
          Length = 71

 Score =  115 bits (289), Expect = 2e-25
 Identities = 54/69 (78%), Positives = 56/69 (80%)
 Frame = +2

Query: 122 MIIPVRCFTCGKVIGNKWXXXXXXXXXXXTEGDALDALQLVRYCCRRMLMTHVDLIEKLL 301
           MI+PVRCFTCGKVIGNKW            EGDALDAL LVRYCCRRMLMTHVDLIEKLL
Sbjct: 1   MIVPVRCFTCGKVIGNKWDTYLELLQADYAEGDALDALGLVRYCCRRMLMTHVDLIEKLL 60

Query: 302 NYNTLEKSD 328
           NYNT+EKSD
Sbjct: 61  NYNTMEKSD 69



>ref|NP_066951.1| DNA directed RNA polymerase II polypeptide L; polymerase (RNA) II
           (DNA directed) polypeptide L (7.6kD); RNA polymerase II
           subunit [Homo sapiens]|gi|1710660|sp|P52436|RPBX_HUMAN
           DNA-directed RNA polymerase II 7.6 kDa polypeptide
           (RPB10) (RPB7.6)|gi|1017825|gb|AAA91459.1| RNA
           polymerase II subunit|gi|12846865|dbj|BAB27338.1|
           unnamed protein product [Mus
           musculus]|gi|13543492|gb|AAH05903.1|AAH05903 polymerase
           (RNA) II (DNA directed) polypeptide L (7.6kD) [Homo
           sapiens]|gi|17391429|gb|AAH18649.1|AAH18649 polymerase
           (RNA) II (DNA directed) polypeptide L (7.6kD) [Homo
           sapiens]|gi|1588297|prf||2208312A RNA
           polymerase:SUBUNIT=7.6kD
          Length = 67

 Score =  103 bits (257), Expect = 1e-21
 Identities = 48/67 (71%), Positives = 51/67 (75%)
 Frame = +2

Query: 122 MIIPVRCFTCGKVIGNKWXXXXXXXXXXXTEGDALDALQLVRYCCRRMLMTHVDLIEKLL 301
           MIIPVRCFTCGK++GNKW           TEGDALDAL L RYCCRRML+ HVDLIEKLL
Sbjct: 1   MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLL 60

Query: 302 NYNTLEK 322
           NY  LEK
Sbjct: 61  NYAPLEK 67



>gb|EAA00426.1| agCP9910 [Anopheles gambiae str. PEST]
          Length = 87

 Score =  103 bits (257), Expect = 1e-21
 Identities = 50/67 (74%), Positives = 51/67 (75%)
 Frame = +2

Query: 122 MIIPVRCFTCGKVIGNKWXXXXXXXXXXXTEGDALDALQLVRYCCRRMLMTHVDLIEKLL 301
           MIIPVRCFTCGKVIGNKW           TEGDALDAL L RYCCRRML+ HVDLIEKLL
Sbjct: 21  MIIPVRCFTCGKVIGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLGHVDLIEKLL 80

Query: 302 NYNTLEK 322
           NY  LEK
Sbjct: 81  NYAPLEK 87



  Database: BlastDB/NCBI/blast/db/2003_02_17_02_00_1/nr
    Posted date:  Feb 17, 2003 10:02 AM
  Number of letters in database: 429,188,541
  Number of sequences in database:  1,339,046
  
Lambda     K      H
   0.318    0.135    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
length of database: 429,188,541
effective HSP length: 114
effective length of database: 276,537,297
effective search space used: 15209551335
frameshift window, decay const: 50,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)