Bombyx BLAST Result against spombe

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= ceN-0244
         (686 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPBC146.07 |prp2|mis11|U2AF large subunit |Schizosaccharomyces p...    35   0.010
SPBC3B9.11c |ctf1||mRNA cleavage and polyadenylation specificity...    34   0.022
SPAC328.05 |||RNA-binding protein involved in export of mRNAs|Sc...    33   0.051
SPBC18H10.04c |sce3|tif48|translation initiation factor eIF4B|Sc...    32   0.089
SPCC1827.05c |||nucleolar RNA-binding protein NIFK |Schizosaccha...    31   0.21 
SPAC644.16 |||RNA-binding protein|Schizosaccharomyces pombe|chr ...    31   0.21 
SPBC660.15 |||mRNA cleavage factor complex subunit |Schizosaccha...    29   0.63 
SPBC839.10 |usp107|snu71|U1 snRNP-associated protein Usp107|Schi...    29   0.83 
SPBC16E9.12c |pab2||poly|Schizosaccharomyces pombe|chr 2|||Manual      28   1.1  
SPAC2F7.11 |nrd1|msa2|RNA-binding protein Nrd1|Schizosaccharomyc...    28   1.5  
SPBC14C8.04 |||acetolactate synthase regulatory unit|Schizosacch...    28   1.5  
SPBC1861.04c |||RNA-binding protein Prp24|Schizosaccharomyces po...    27   1.9  
SPAC16.02c |srp2||mRNA export factor Srp2|Schizosaccharomyces po...    27   2.5  
SPCC16C4.07 |scw1||RNA-binding protein Scw1|Schizosaccharomyces ...    27   3.4  
SPAC1F7.11c |||transcription factor zf-fungal binuclear cluster ...    27   3.4  
SPAC140.02 |gar2||GAR family|Schizosaccharomyces pombe|chr 1|||M...    26   4.4  
SPBC13A2.01c |||nuclear cap-binding complex small subunit|Schizo...    26   4.4  
SPAC1687.20c |mis6||inner centromere protein Mis6|Schizosaccharo...    26   5.9  

>SPBC146.07 |prp2|mis11|U2AF large subunit |Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 517

 Score = 35.1 bits (77), Expect = 0.010
 Identities = 32/125 (25%), Positives = 55/125 (44%), Gaps = 15/125 (12%)
 Frame = +2

Query: 257 WDVPPPGFEHITPLQYK---------AMQAAGQIPANIV--ADTPQAAV----PVVGSTI 391
           WD+ PPG+E +T  Q K         A +AA   P  ++  A + + ++    P +    
Sbjct: 135 WDIKPPGYELVTADQAKMSGVFPLPGAPRAAVTDPEKLLEFARSAEGSIIAPPPPLQPGA 194

Query: 392 TRQARRLYVGNIPFGVTEEETMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRS 571
           +RQARRL V  IP    E+  + F       +   +       +  +  ++NFA LE  +
Sbjct: 195 SRQARRLVVTGIPNEFVEDAFVSFIEDLFISTTYHKPETKHFSSVNVCKEENFAILEVAT 254

Query: 572 IDETT 586
            ++ T
Sbjct: 255 PEDAT 259


>SPBC3B9.11c |ctf1||mRNA cleavage and polyadenylation specificity
           factor complex subunit Ctf1|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 363

 Score = 33.9 bits (74), Expect = 0.022
 Identities = 23/68 (33%), Positives = 33/68 (48%)
 Frame = +2

Query: 410 LYVGNIPFGVTEEETMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQ 589
           ++VGNIP+ V+E++  E FNQ   +          VL  +    K + F EF   D  T 
Sbjct: 9   VFVGNIPYDVSEQQMTEIFNQVGPVKTF-----KLVLDPETGSGKGYGFCEF--FDSETT 61

Query: 590 AMAFDGIN 613
           AMA   +N
Sbjct: 62  AMAVRKLN 69


>SPAC328.05 |||RNA-binding protein involved in export of
           mRNAs|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 434

 Score = 32.7 bits (71), Expect = 0.051
 Identities = 21/72 (29%), Positives = 32/72 (44%)
 Frame = +2

Query: 380 GSTITRQARRLYVGNIPFGVTEEETMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFL 559
           G   T+Q RR+YVGN+ + V   E  EF  Q      +       +L     L K  A +
Sbjct: 58  GQKYTQQERRVYVGNLSYQVRWFELKEFMGQ------VGNVLNCEILNLPNGLSKGCAII 111

Query: 560 EFRSIDETTQAM 595
           E+ + +E   A+
Sbjct: 112 EYSTAEEARTAI 123


>SPBC18H10.04c |sce3|tif48|translation initiation factor
           eIF4B|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 388

 Score = 31.9 bits (69), Expect = 0.089
 Identities = 20/86 (23%), Positives = 42/86 (48%)
 Frame = +2

Query: 413 YVGNIPFGVTEEETMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQA 592
           +VGN+ F +TE +  +FF + +    L       V+       + F ++EF + D  + A
Sbjct: 97  HVGNLSFDLTENDLGDFFGEGVTSIRL-------VIDPLTERSRGFGYVEFETADTLSAA 149

Query: 593 MAFDGINFKGQKLKDSTST*LPAYAR 670
           +A  G +  G+ ++ + +    ++AR
Sbjct: 150 LALSGEDLMGRPVRITVAEPRRSFAR 175


>SPCC1827.05c |||nucleolar RNA-binding protein NIFK
           |Schizosaccharomyces pombe|chr 3|||Manual
          Length = 276

 Score = 30.7 bits (66), Expect = 0.21
 Identities = 17/56 (30%), Positives = 29/56 (51%)
 Frame = +2

Query: 410 LYVGNIPFGVTEEETMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSID 577
           LYVG +P G  E++   +F+Q   +  L  +        +    K++AF+EF S+D
Sbjct: 107 LYVGRLPHGFYEKQMRMYFSQFGPVLRLRMSRNR-----KTGSSKHYAFIEFESLD 157


>SPAC644.16 |||RNA-binding protein|Schizosaccharomyces pombe|chr
           1|||Manual
          Length = 422

 Score = 30.7 bits (66), Expect = 0.21
 Identities = 21/68 (30%), Positives = 34/68 (50%)
 Frame = +2

Query: 410 LYVGNIPFGVTEEETMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDETTQ 589
           +YVGNIP+ + EE+ ++ F Q    SG  ++    V+  +    K + F E+   D  T 
Sbjct: 7   VYVGNIPYEMAEEQVIDIFKQ----SGPVKSF-QLVIDPESGQPKGYGFCEYH--DPATA 59

Query: 590 AMAFDGIN 613
           A A   +N
Sbjct: 60  ASAVRNLN 67


>SPBC660.15 |||mRNA cleavage factor complex subunit
           |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 474

 Score = 29.1 bits (62), Expect = 0.63
 Identities = 11/22 (50%), Positives = 15/22 (68%)
 Frame = +2

Query: 407 RLYVGNIPFGVTEEETMEFFNQ 472
           +++VG +P   TEEE   FFNQ
Sbjct: 248 KMFVGGVPGDCTEEEFRNFFNQ 269


>SPBC839.10 |usp107|snu71|U1 snRNP-associated protein
           Usp107|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 695

 Score = 28.7 bits (61), Expect = 0.83
 Identities = 25/91 (27%), Positives = 47/91 (51%), Gaps = 1/91 (1%)
 Frame = +2

Query: 326 QIPANIVADTPQAAVPVVGSTITRQARRLYVGNIPFGVTEEETMEFF-NQQMHLSGLAQA 502
           Q P++  + T + + P V     +  R L++GNIP     +E  +F+ ++ + LSG  + 
Sbjct: 113 QTPSSEKSTTERESRPFVPPNSQQMRRMLFIGNIP-----KELDDFWMDKILRLSG--KL 165

Query: 503 AGNPVLACQINLDKNFAFLEFRSIDETTQAM 595
           A    +A   N   +F F EF S ++ ++A+
Sbjct: 166 ASWRRVADADNSMTSFGFAEFESNEQFSRAL 196


>SPBC16E9.12c |pab2||poly|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 166

 Score = 28.3 bits (60), Expect = 1.1
 Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 1/79 (1%)
 Frame = +2

Query: 401 ARRLYVGNIPFGVTEEETMEFFNQQMHLSGLAQAAGNPVLACQI-NLDKNFAFLEFRSID 577
           A+ +YVGN+ + VT EE       Q H +         +L  +     K FA++EF    
Sbjct: 54  AQSVYVGNVDYSVTPEEL------QSHFASCGSVNRVTILCDKFTGHPKGFAYIEFSEPS 107

Query: 578 ETTQAMAFDGINFKGQKLK 634
               A+  +G     + LK
Sbjct: 108 LVPNALLLNGSMLHERPLK 126


>SPAC2F7.11 |nrd1|msa2|RNA-binding protein Nrd1|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 529

 Score = 27.9 bits (59), Expect = 1.5
 Identities = 21/75 (28%), Positives = 37/75 (49%)
 Frame = +2

Query: 404 RRLYVGNIPFGVTEEETMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFLEFRSIDET 583
           R +++GN+P G+TE+E  E     +   G       P+   +I  ++N AF+ F +I   
Sbjct: 206 RNVFLGNLPNGITEDEIRE----DLEPFG-------PIDQIKIVTERNIAFVHFLNIAAA 254

Query: 584 TQAMAFDGINFKGQK 628
            +A+    +N K  K
Sbjct: 255 IKAVQELPLNPKWSK 269


>SPBC14C8.04 |||acetolactate synthase regulatory
           unit|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 289

 Score = 27.9 bits (59), Expect = 1.5
 Identities = 12/34 (35%), Positives = 19/34 (55%)
 Frame = +2

Query: 290 TPLQYKAMQAAGQIPANIVADTPQAAVPVVGSTI 391
           +P+ YKA+ A   +P   + + P+A VP   S I
Sbjct: 23  SPITYKALHANSPLPRCRIIEPPRATVPEAVSNI 56


>SPBC1861.04c |||RNA-binding protein Prp24|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 1014

 Score = 27.5 bits (58), Expect = 1.9
 Identities = 15/45 (33%), Positives = 20/45 (44%)
 Frame = +2

Query: 332 PANIVADTPQAAVPVVGSTITRQARRLYVGNIPFGVTEEETMEFF 466
           P  +    P    P  G+    + R LYV NI F V E++   FF
Sbjct: 735 PIQVFISDPLRRTPRSGAVY--EGRELYVTNIDFKVNEKDVETFF 777


>SPAC16.02c |srp2||mRNA export factor Srp2|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 365

 Score = 27.1 bits (57), Expect = 2.5
 Identities = 11/20 (55%), Positives = 14/20 (70%)
 Frame = +2

Query: 407 RLYVGNIPFGVTEEETMEFF 466
           RL+VG IP   T E+ M+FF
Sbjct: 5   RLFVGRIPPQATREDMMDFF 24


>SPCC16C4.07 |scw1||RNA-binding protein Scw1|Schizosaccharomyces
           pombe|chr 3|||Manual
          Length = 561

 Score = 26.6 bits (56), Expect = 3.4
 Identities = 17/59 (28%), Positives = 26/59 (44%)
 Frame = +2

Query: 302 YKAMQAAGQIPANIVADTPQAAVPVVGSTITRQARRLYVGNIPFGVTEEETMEFFNQQM 478
           + A  ++  I   I A TP    P   +        +YVGN+P   +EEE    F+ Q+
Sbjct: 395 FSAYSSSHGIHQRIPASTPTNTNPADQNP---PCNTIYVGNLPPSTSEEELKVLFSTQV 450


>SPAC1F7.11c |||transcription factor zf-fungal binuclear cluster
           type |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 782

 Score = 26.6 bits (56), Expect = 3.4
 Identities = 11/26 (42%), Positives = 12/26 (46%)
 Frame = +3

Query: 366 PCRWWVRL*HVKREGYMSATYPLASP 443
           P RWWV   H    G + A Y L  P
Sbjct: 550 PLRWWVFRFHSLNAGIIQAAYALCFP 575


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

 Score = 26.2 bits (55), Expect = 4.4
 Identities = 21/90 (23%), Positives = 37/90 (41%)
 Frame = +2

Query: 380 GSTITRQARRLYVGNIPFGVTEEETMEFFNQQMHLSGLAQAAGNPVLACQINLDKNFAFL 559
           G  ++  +  ++VGN+ F  TE++    F       G  Q+   P    Q    K F ++
Sbjct: 358 GDQLSEPSDTVFVGNLSFNATEDDLSTAFGG----CGDIQSIRLPT-DPQSGRLKGFGYV 412

Query: 560 EFRSIDETTQAMAFDGINFKGQKLKDSTST 649
            F  ID   + +  +G    G+  +   ST
Sbjct: 413 TFSDIDSAKKCVEMNGHFIAGRPCRLDFST 442


>SPBC13A2.01c |||nuclear cap-binding complex small
           subunit|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 182

 Score = 26.2 bits (55), Expect = 4.4
 Identities = 10/26 (38%), Positives = 17/26 (65%)
 Frame = +2

Query: 395 RQARRLYVGNIPFGVTEEETMEFFNQ 472
           +Q+  +YVGN+ F  TEE+    F++
Sbjct: 29  KQSNCVYVGNLSFYTTEEQIYALFSK 54


>SPAC1687.20c |mis6||inner centromere protein
           Mis6|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 672

 Score = 25.8 bits (54), Expect = 5.9
 Identities = 15/44 (34%), Positives = 19/44 (43%)
 Frame = +2

Query: 356 PQAAVPVVGSTITRQARRLYVGNIPFGVTEEETMEFFNQQMHLS 487
           PQ    + G  I  Q      G+IP    +EET   F   +HLS
Sbjct: 597 PQFFSYINGYQIYLQQTNPATGSIPLKPIQEETFGAFQSNLHLS 640


  Database: spombe
    Posted date:  Oct 4, 2007 10:57 AM
  Number of letters in database: 2,362,478
  Number of sequences in database:  5004
  
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: 2,646,085
Number of Sequences: 5004
Number of extensions: 55023
Number of successful extensions: 170
Number of sequences better than 10.0: 18
Number of HSP's better than 10.0 without gapping: 162
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): 167
length of database: 2,362,478
effective HSP length: 70
effective length of database: 2,012,198
effective search space used: 317927284
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)