Bombyx BLAST Result against arabidopsis

BLASTX 2.2.12 [Aug-07-2005]


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.

Query= ce--0860
         (665 letters)

Database: arabidopsis 
           28,952 sequences; 12,070,560 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

At2g32490.1 68415.m03970 3'-5' exonuclease domain-containing pro...    31   0.91 
At5g28740.1 68418.m03530 transcription-coupled DNA repair protei...    30   1.6  
At5g24740.1 68418.m02920 expressed protein                             28   4.9  
At5g40280.1 68418.m04886 protein farnesyltransferase beta subuni...    27   8.5  
At3g22320.1 68416.m02819 DNA-directed RNA polymerase, putative s...    27   8.5  

>At2g32490.1 68415.m03970 3'-5' exonuclease domain-containing
           protein contains Pfam profile PF01612: 3'-5' exonuclease
          Length = 217

 Score = 30.7 bits (66), Expect = 0.91
 Identities = 13/27 (48%), Positives = 19/27 (70%), Gaps = 3/27 (11%)
 Frame = -1

Query: 242 NHHLDLWR---IRRYLHLLIFTCTFKT 171
           +H LD+WR   IR YLH L+ + +F+T
Sbjct: 135 HHQLDIWRLVHIRHYLHPLLLSSSFET 161


>At5g28740.1 68418.m03530 transcription-coupled DNA repair
           protein-related similar to XAB2 (XPA-binding protein 2)
           [Homo sapiens] GI:10566459
          Length = 917

 Score = 29.9 bits (64), Expect = 1.6
 Identities = 10/34 (29%), Positives = 19/34 (55%)
 Frame = +2

Query: 389 KKYVSDRDVVNTQTLIDNSIHKTYSIFNKTISIW 490
           K Y + +D+VNT+ + D ++   Y   +   S+W
Sbjct: 431 KLYENHKDLVNTRVIFDKAVQVNYKTVDHLASVW 464


>At5g24740.1 68418.m02920 expressed protein
          Length = 3306

 Score = 28.3 bits (60), Expect = 4.9
 Identities = 11/37 (29%), Positives = 24/37 (64%)
 Frame = -3

Query: 555  KFISILEIDYLN*RLCFFSLKLQIDMVLLKIEYVLCI 445
            K +S++  +Y+N R+  F L+L++  +L  +E+V  +
Sbjct: 2750 KDVSLVSFEYINIRIGEFGLELELQTLLSLLEFVKAV 2786


>At5g40280.1 68418.m04886 protein farnesyltransferase beta subunit
           (ERA1) identical to GI:8347240 [SWISS-PROT:Q38920];
           WIGGUM mutant
          Length = 482

 Score = 27.5 bits (58), Expect = 8.5
 Identities = 12/30 (40%), Positives = 20/30 (66%)
 Frame = +2

Query: 227 DPDDDSNNLNLHCYAHIQTYIQKYRLKLMF 316
           D D+D +++N H   H  TYI + R++L+F
Sbjct: 361 DEDNDEDSVNGHRIHHTSTYINR-RMQLVF 389


>At3g22320.1 68416.m02819 DNA-directed RNA polymerase, putative
           similar to SP|P19388 DNA-directed RNA polymerase II 23
           kDa polypeptide (EC 2.7.7.6) {Homo sapiens}; contains
           Pfam profiles PF03871: RNA polymerase Rpb5 N-terminal
           domain, PF01191: RNA polymerase Rpb5 C-terminal domain
          Length = 205

 Score = 27.5 bits (58), Expect = 8.5
 Identities = 17/63 (26%), Positives = 32/63 (50%)
 Frame = +2

Query: 473 KTISIWSFKEKKHNR*FK*SISSIDMNLVPFGRGHFDCSSSRFNIHFLRPTPLSVGVHAY 652
           KT+ +++ + K  N  F+ +I  +  NL PF R      SS+F++   +   + V +  +
Sbjct: 80  KTMKMYTNRMKSENV-FR-AILVVQQNLTPFARTCISEISSKFHLEVFQEAEMLVNIKEH 137

Query: 653 FLV 661
            LV
Sbjct: 138 VLV 140


  Database: arabidopsis
    Posted date:  Oct 4, 2007 10:56 AM
  Number of letters in database: 12,070,560
  Number of sequences in database:  28,952
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 13,246,634
Number of Sequences: 28952
Number of extensions: 255735
Number of successful extensions: 609
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 600
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 608
length of database: 12,070,560
effective HSP length: 78
effective length of database: 9,812,304
effective search space used: 1403159472
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)