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= wdS20960
         (550 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

At4g30220.1 68417.m04298 small nuclear ribonucleoprotein F, puta...    95   2e-20
At2g43810.1 68415.m05446 small nuclear ribonucleoprotein F, puta...    55   4e-08
At3g59810.1 68416.m06674 small nuclear ribonucleoprotein F, puta...    52   2e-07
At5g27720.1 68418.m03325 small nuclear ribonucleoprotein, putati...    33   0.13 
At1g35850.1 68414.m04454 pumilio/Puf RNA-binding domain-containi...    28   3.6  

>At4g30220.1 68417.m04298 small nuclear ribonucleoprotein F,
           putative / snRNP-F, putative / Sm protein F, putative
           similar to SWISS-PROT:Q15356 small nuclear
           ribonucleoprotein F (snRNP-F, Sm protein F, Sm-F, SmF)
           [Mouse]
          Length = 88

 Score = 95.5 bits (227), Expect = 2e-20
 Identities = 41/55 (74%), Positives = 46/55 (83%)
 Frame = +1

Query: 91  INPKPFLNSLTGKSVLVKLKWGHEYKGLLVSTDGYMNLQLANTEELVDGTCTGNL 255
           +NPKPFLN+LTGK+V+VKLKWG EYKG L S D YMNLQL NTEE +DG  TGNL
Sbjct: 6   VNPKPFLNNLTGKTVIVKLKWGMEYKGFLASVDSYMNLQLGNTEEYIDGQLTGNL 60



 Score = 35.5 bits (78), Expect = 0.024
 Identities = 14/15 (93%), Positives = 15/15 (100%)
 Frame = +3

Query: 255 GEVLIRCNNVLYVRG 299
           GE+LIRCNNVLYVRG
Sbjct: 61  GEILIRCNNVLYVRG 75


>At2g43810.1 68415.m05446 small nuclear ribonucleoprotein F,
           putative / U6 snRNA-associated Sm-like protein, putative
           / Sm protein F, putative similar to SWISS-PROT:Q9Y4Y8 U6
           snRNA-associated Sm-like protein LSm6 [Mus musculus]
          Length = 91

 Score = 54.8 bits (126), Expect = 4e-08
 Identities = 24/47 (51%), Positives = 32/47 (68%)
 Frame = +1

Query: 97  PKPFLNSLTGKSVLVKLKWGHEYKGLLVSTDGYMNLQLANTEELVDG 237
           P  FL S+ GK V+VKL  G +Y+G+L   DGYMN+ +  TEE V+G
Sbjct: 15  PADFLKSIRGKPVVVKLNSGVDYRGILTCLDGYMNIAMEQTEEYVNG 61


>At3g59810.1 68416.m06674 small nuclear ribonucleoprotein F,
           putative / U6 snRNA-associated Sm-like protein, putative
           / Sm protein F, putative similar to SWISS-PROT:Q9Y4Y8 U6
           snRNA-associated Sm-like protein LSm6 [Mus musculus]
          Length = 91

 Score = 52.4 bits (120), Expect = 2e-07
 Identities = 23/47 (48%), Positives = 31/47 (65%)
 Frame = +1

Query: 97  PKPFLNSLTGKSVLVKLKWGHEYKGLLVSTDGYMNLQLANTEELVDG 237
           P  FL S+ G+ V+VKL  G +Y+G L   DGYMN+ +  TEE V+G
Sbjct: 15  PADFLKSIRGRPVVVKLNSGVDYRGTLTCLDGYMNIAMEQTEEYVNG 61


>At5g27720.1 68418.m03325 small nuclear ribonucleoprotein, putative
           / snRNP, putative / Sm protein, putative similar to
           SWISS-PROT:Q9QXA5 U6 snRNA-associated Sm-like protein
           LSm4 [Mus musculus]
          Length = 129

 Score = 33.1 bits (72), Expect = 0.13
 Identities = 16/38 (42%), Positives = 22/38 (57%)
 Frame = +1

Query: 97  PKPFLNSLTGKSVLVKLKWGHEYKGLLVSTDGYMNLQL 210
           P   L +  G  +LV+LK G  Y G LV+ D +MN+ L
Sbjct: 3   PLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHL 40


>At1g35850.1 68414.m04454 pumilio/Puf RNA-binding domain-containing
           protein contains Pfam profile: PF00806: Pumilio-family
           RNA binding domains (aka PUM-HD, Pumilio homology
           domain)
          Length = 304

 Score = 28.3 bits (60), Expect = 3.6
 Identities = 12/28 (42%), Positives = 17/28 (60%)
 Frame = +1

Query: 172 LLVSTDGYMNLQLANTEELVDGTCTGNL 255
           LL+S D Y N  + +  +L D  CTGN+
Sbjct: 168 LLLSNDAYGNFVVQHVLKLHDSRCTGNI 195


  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: 9,394,147
Number of Sequences: 28952
Number of extensions: 156030
Number of successful extensions: 297
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 292
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): 297
length of database: 12,070,560
effective HSP length: 77
effective length of database: 9,841,256
effective search space used: 1033331880
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)