Silkworm BLAST Result against spombe

BLASTP 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= BGIBMGA001870-TA|BGIBMGA001870-PA|IPR000504|RNA-binding region
RNP-1 (RNA recognition motif)
         (619 letters)

Database: spombe 
           5004 sequences; 2,362,478 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC19G12.07c |rsd1||RNA-binding protein Rsd1|Schizosaccharomyce...    36   0.017
SPBC887.05c |cwf29||RNA-binding protein Cwf29|Schizosaccharomyce...    35   0.038
SPBC13G1.14c |||RNA-binding protein|Schizosaccharomyces pombe|ch...    32   0.20 
SPBC4F6.14 |||RNA-binding protein|Schizosaccharomyces pombe|chr ...    32   0.27 
SPAC10F6.06 |vip1||RNA-binding protein Vip1|Schizosaccharomyces ...    31   0.36 
SPAC16E8.06c |nop12||RNA-binding protein Nop12|Schizosaccharomyc...    31   0.36 
SPAC140.02 |gar2||GAR family|Schizosaccharomyces pombe|chr 1|||M...    29   2.5  
SPAC15A10.02 |taf12||transcription factor TFIID complex subunit ...    28   3.3  
SPBC29A3.07c |||U2 snRNP-associated protein Sf3b14 homolog |Schi...    27   5.8  

>SPAC19G12.07c |rsd1||RNA-binding protein Rsd1|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 604

 Score = 35.9 bits (79), Expect = 0.017
 Identities = 29/96 (30%), Positives = 50/96 (52%), Gaps = 6/96 (6%)

Query: 161 EEIRRTVLVADTGS-LTSQQLIDHFCQAGEVKYMRFCSRDVD--TLKYALIEMTEQEAVI 217
           E  RRTV V+   + LTS++L D F QAG V+  +     +   +   A +E   +++V 
Sbjct: 236 ERDRRTVFVSQLANRLTSRELYDFFEQAGPVRDAQIVRDKISGRSKGVAYVEFCHEDSVQ 295

Query: 218 KALHLNGSTLDGQTIQVYHATQSICKPQTKSNEAAQ 253
            A+ L+G  L G  + +   T++  +   K+ EAA+
Sbjct: 296 AAIALSGKRLLGLPV-IVQLTEA--EKNRKAREAAE 328


>SPBC887.05c |cwf29||RNA-binding protein Cwf29|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 217

 Score = 34.7 bits (76), Expect = 0.038
 Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 4/88 (4%)

Query: 9   IQVTNIAPQATKDQMQTLFGYLGKIDDIRLYPTIRDVSCPVQSRICYVKYYDSANVNVA- 67
           I + N+     +D +  +F   G+  DI L   +RD          ++KY D  +  +A 
Sbjct: 33  IYIGNLDFDLNEDDILCVFSEFGEPVDINL---VRDKETGKSKGFAFLKYEDQRSTVLAV 89

Query: 68  QHMTNTVFIDRALIVIPVQSGEIPDEHK 95
            +MTN   +DR + V  V S ++P + K
Sbjct: 90  DNMTNVKLLDRLVRVDHVASYKVPQKEK 117


>SPBC13G1.14c |||RNA-binding protein|Schizosaccharomyces pombe|chr
           2|||Manual
          Length = 243

 Score = 32.3 bits (70), Expect = 0.20
 Identities = 22/77 (28%), Positives = 30/77 (38%), Gaps = 4/77 (5%)

Query: 7   RVIQVTNIAPQATKDQMQTLFGYLGKIDDIRLYPTIRDVSCPVQSRICYVKY-YDSANVN 65
           R I V N+    TK+ +  +FG  G ID I   P  +     +    CY++Y Y     N
Sbjct: 99  RTILVENLTRNVTKEHIAEIFGIYGLIDHI-FMPIYK--KSELNKGYCYIEYVYHDQAAN 155

Query: 66  VAQHMTNTVFIDRALIV 82
               M N       L V
Sbjct: 156 AVDKMNNAELDGEELFV 172


>SPBC4F6.14 |||RNA-binding protein|Schizosaccharomyces pombe|chr
           2|||Manual
          Length = 674

 Score = 31.9 bits (69), Expect = 0.27
 Identities = 21/80 (26%), Positives = 42/80 (52%), Gaps = 2/80 (2%)

Query: 178 QQLIDHFCQAGEVKYMRFCSRDVDTL-KYALIEMTEQEAVIKALH-LNGSTLDGQTIQVY 235
           Q L  HF + G+V+ ++  ++    +  +A + M +++A  +A++ LNG+ +DG+ I V 
Sbjct: 122 QHLEPHFSKFGKVREIKIPTKGGGRMCGFAFVWMKDRKAAEEAMNSLNGTEIDGRPIAVD 181

Query: 236 HATQSICKPQTKSNEAAQRE 255
            A        T   +A+  E
Sbjct: 182 WAVSKDAFEATTLKDASSEE 201


>SPAC10F6.06 |vip1||RNA-binding protein Vip1|Schizosaccharomyces
          pombe|chr 1|||Manual
          Length = 257

 Score = 31.5 bits (68), Expect = 0.36
 Identities = 14/32 (43%), Positives = 22/32 (68%), Gaps = 1/32 (3%)

Query: 5  STRVIQVTNIAPQATKDQMQTLFGYLGKIDDI 36
          S +VI VTNI+P+ T+ Q+   F + GK+ +I
Sbjct: 2  SNQVI-VTNISPEVTEKQISDFFSFCGKVSNI 32


>SPAC16E8.06c |nop12||RNA-binding protein Nop12|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 438

 Score = 31.5 bits (68), Expect = 0.36
 Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 3/67 (4%)

Query: 1   MVSGSTRVIQVTNIAPQATKDQMQTLFGYLGKIDDIRLYPTIRDVSCPVQSRICYVKYYD 60
           M   + R + V N+A +A ++ +   FG  G ID +R+   +RD    +     Y+++ D
Sbjct: 264 MPQDTKRCVFVGNLAFEAEEEPLWRYFGDCGSIDYVRI---VRDPKTNLGKGFAYIQFKD 320

Query: 61  SANVNVA 67
           +  V+ A
Sbjct: 321 TMGVDKA 327


>SPAC140.02 |gar2||GAR family|Schizosaccharomyces pombe|chr
           1|||Manual
          Length = 500

 Score = 28.7 bits (61), Expect = 2.5
 Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 1/40 (2%)

Query: 2   VSGSTRVIQVTNIAPQATKDQMQTLFGYLGKIDDIRLYPT 41
           +S  +  + V N++  AT+D + T FG  G I  IRL PT
Sbjct: 361 LSEPSDTVFVGNLSFNATEDDLSTAFGGCGDIQSIRL-PT 399


>SPAC15A10.02 |taf12||transcription factor TFIID complex subunit A
           |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 450

 Score = 28.3 bits (60), Expect = 3.3
 Identities = 21/94 (22%), Positives = 38/94 (40%), Gaps = 3/94 (3%)

Query: 86  QSGEIPDEHKALEMSSNGTL---VPGLSSVEPRLPMHVINTLDGIPPNQVIQTHDANLTA 142
           QSG++P++    ++ SNG L    P  S+  PR  ++       +  ++ +QT    LT 
Sbjct: 76  QSGQLPNQQLLQQLQSNGALQQGTPEPSNTRPRPQLNAQEQTMLLVRHRQLQTAQNYLTE 135

Query: 143 AGXXXXXXXXXXXDSRKIEEIRRTVLVADTGSLT 176
                         + +++   R  LV     LT
Sbjct: 136 MKEALGRIKNELSTNERLDTSAREALVKQESELT 169


>SPBC29A3.07c |||U2 snRNP-associated protein Sf3b14 homolog
          |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 137

 Score = 27.5 bits (58), Expect = 5.8
 Identities = 18/75 (24%), Positives = 37/75 (49%), Gaps = 5/75 (6%)

Query: 8  VIQVTNIAPQATKDQMQTLFGYLGKIDDIRLYPTIRDVSCPVQSRICYVKYYDSANVNVA 67
          ++ + N++ + T ++M  LFG  G +  IRL  T++       + + Y    D+      
Sbjct: 13 ILFIKNLSFKITAEEMYDLFGRYGPVRQIRLGNTVQTRG---TAFVVYENVQDAR--RAC 67

Query: 68 QHMTNTVFIDRALIV 82
          + ++   F+DR L+V
Sbjct: 68 EKLSGYNFMDRYLVV 82


  Database: spombe
    Posted date:  Oct 3, 2007  3:31 PM
  Number of letters in database: 2,362,478
  Number of sequences in database:  5004
  
Lambda     K      H
   0.313    0.130    0.371 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 1,769,115
Number of Sequences: 5004
Number of extensions: 60244
Number of successful extensions: 160
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 156
Number of HSP's gapped (non-prelim): 11
length of query: 619
length of database: 2,362,478
effective HSP length: 77
effective length of query: 542
effective length of database: 1,977,170
effective search space: 1071626140
effective search space used: 1071626140
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 42 (21.9 bits)
S2: 57 (27.1 bits)