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= Dr_sW_001_G15
(584 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q15427|SF3B4_HUMAN Splicing factor 3B subunit 4 (Spliceo... 135 7e-32
sp|Q09442|YP85_CAEEL Hypothetical RNA-binding protein C08B1... 121 1e-27
sp|O14102|SAP49_SCHPO Spliceosome-associated protein 49 80 5e-15
sp|Q99181|HSH49_YEAST HSH49 protein 48 2e-05
sp|Q13310|PABP4_HUMAN Polyadenylate-binding protein 4 (Poly... 36 0.080
sp|Q99069|GRP1_SORBI Glycine-rich RNA-binding protein 1 34 0.31
sp|O04425|FCA_ARATH Flowering time control protein FCA 33 0.40
sp|Q14576|ELAV3_HUMAN ELAV-like protein 3 (Hu-antigen C) (H... 33 0.68
sp|Q15717|ELAV1_HUMAN ELAV-like protein 1 (Hu-antigen R) (HuR) 33 0.68
sp|Q60900|ELAV3_MOUSE ELAV-like protein 3 (Hu-antigen C) (HuC) 33 0.68
>sp|Q15427|SF3B4_HUMAN Splicing factor 3B subunit 4 (Spliceosome associated protein 49)
(SAP 49) (SF3b50) (Pre-mRNA splicing factor SF3b 49 kDa
subunit)
Length = 424
Score = 135 bits (340), Expect = 7e-32
Identities = 66/69 (95%), Positives = 68/69 (98%)
Frame = +3
Query: 3 YAFINYASFEASDAAIEAMNGQYLCNRAITVSYAFKKDSKGERHGSAAERLLAAQNPLSQ 182
YAFIN+ASF+ASDAAIEAMNGQYLCNR ITVSYAFKKDSKGERHGSAAERLLAAQNPLSQ
Sbjct: 144 YAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFKKDSKGERHGSAAERLLAAQNPLSQ 203
Query: 183 ADRPHQLFA 209
ADRPHQLFA
Sbjct: 204 ADRPHQLFA 212
>sp|Q09442|YP85_CAEEL Hypothetical RNA-binding protein C08B11.5 in chromosome II
Length = 388
Score = 121 bits (303), Expect = 1e-27
Identities = 56/69 (81%), Positives = 65/69 (94%)
Frame = +3
Query: 3 YAFINYASFEASDAAIEAMNGQYLCNRAITVSYAFKKDSKGERHGSAAERLLAAQNPLSQ 182
+AFIN+ASFEASD A+EAMNGQ+LCNRAITVSYAFK+DSKGERHG+AAER+LAAQNPL
Sbjct: 144 FAFINFASFEASDTALEAMNGQFLCNRAITVSYAFKRDSKGERHGTAAERMLAAQNPLFP 203
Query: 183 ADRPHQLFA 209
DRPHQ+F+
Sbjct: 204 KDRPHQVFS 212
>sp|O14102|SAP49_SCHPO Spliceosome-associated protein 49
Length = 335
Score = 79.7 bits (195), Expect = 5e-15
Identities = 37/54 (68%), Positives = 44/54 (81%)
Frame = +3
Query: 3 YAFINYASFEASDAAIEAMNGQYLCNRAITVSYAFKKDSKGERHGSAAERLLAA 164
Y F++Y SFE +DAAIEAMN Q+L N+ ITVSYAFK++ KGERHG AER LAA
Sbjct: 142 YGFVSYDSFETADAAIEAMNNQFLMNKPITVSYAFKREGKGERHGDIAERKLAA 195
>sp|Q99181|HSH49_YEAST HSH49 protein
Length = 213
Score = 48.1 bits (113), Expect = 2e-05
Identities = 22/52 (42%), Positives = 35/52 (67%), Gaps = 1/52 (1%)
Frame = +3
Query: 6 AFINYASFEASDAAIEAMNGQYLCNRAITVSYAFKKDSKGE-RHGSAAERLL 158
A++ + FE +D AI+++N Q + N ITV YAFK++ KG ++G +RLL
Sbjct: 151 AYVYFEDFEKADLAIKSLNNQLVANNRITVDYAFKENGKGNAKYGDDVDRLL 202
>sp|Q13310|PABP4_HUMAN Polyadenylate-binding protein 4 (Poly(A)-binding protein 4) (PABP
4) (Inducible poly(A)-binding protein) (iPABP)
(Activated-platelet protein 1) (APP-1)
Length = 644
Score = 35.8 bits (81), Expect = 0.080
Identities = 19/50 (38%), Positives = 30/50 (60%), Gaps = 1/50 (2%)
Frame = +3
Query: 3 YAFINYASFEASDAAIEAMNGQYLCNRAITVS-YAFKKDSKGERHGSAAE 149
YAF+++ + EA+D AIE MNG L +R + V + +K+ + E A E
Sbjct: 140 YAFVHFETQEAADKAIEKMNGMLLNDRKVFVGRFKSRKEREAELGAKAKE 189
Score = 30.0 bits (66), Expect = 4.4
Identities = 13/37 (35%), Positives = 22/37 (59%)
Frame = +3
Query: 3 YAFINYASFEASDAAIEAMNGQYLCNRAITVSYAFKK 113
+ F++Y E ++ A+E MNG+ + + I V A KK
Sbjct: 233 FGFVSYEKHEDANKAVEEMNGKEISGKIIFVGRAQKK 269
>sp|Q99069|GRP1_SORBI Glycine-rich RNA-binding protein 1
Length = 142
Score = 33.9 bits (76), Expect = 0.31
Identities = 16/41 (39%), Positives = 26/41 (63%)
Frame = +3
Query: 3 YAFINYASFEASDAAIEAMNGQYLCNRAITVSYAFKKDSKG 125
+ F+ +++ EA +AIE MNG+ L R ITV+ A + +G
Sbjct: 30 FGFVTFSTEEAMRSAIEGMNGKELDGRNITVNEAQSRGGRG 70
>sp|O04425|FCA_ARATH Flowering time control protein FCA
Length = 747
Score = 33.5 bits (75), Expect = 0.40
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Frame = +3
Query: 9 FINYASFEASDAAIEAMNGQYL---CNRAITVSYAFKKDSKGERHGSAAERLLAAQNPLS 179
F+ Y+S E + AAI+ +NG Y CN+ + V +A K K A + P
Sbjct: 255 FVKYSSKETAMAAIDGLNGTYTMRGCNQPLIVRFAEPKRPKPGESREMAPPVGLGSGPRF 314
Query: 180 QADRP 194
QA P
Sbjct: 315 QASGP 319
>sp|Q14576|ELAV3_HUMAN ELAV-like protein 3 (Hu-antigen C) (HuC) (Paraneoplastic cerebellar
degeneration-associated antigen) (Paraneoplastic limbic
encephalitis antigen 21)
Length = 367
Score = 32.7 bits (73), Expect = 0.68
Identities = 15/34 (44%), Positives = 20/34 (58%)
Frame = +3
Query: 3 YAFINYASFEASDAAIEAMNGQYLCNRAITVSYA 104
Y F+NY+ +D AI +NG L + I VSYA
Sbjct: 82 YGFVNYSDPNDADKAINTLNGLKLQTKTIKVSYA 115
>sp|Q15717|ELAV1_HUMAN ELAV-like protein 1 (Hu-antigen R) (HuR)
Length = 326
Score = 32.7 bits (73), Expect = 0.68
Identities = 14/34 (41%), Positives = 22/34 (64%)
Frame = +3
Query: 3 YAFINYASFEASDAAIEAMNGQYLCNRAITVSYA 104
Y F+NY + + ++ AI +NG L ++ I VSYA
Sbjct: 63 YGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYA 96
>sp|Q60900|ELAV3_MOUSE ELAV-like protein 3 (Hu-antigen C) (HuC)
Length = 367
Score = 32.7 bits (73), Expect = 0.68
Identities = 15/34 (44%), Positives = 20/34 (58%)
Frame = +3
Query: 3 YAFINYASFEASDAAIEAMNGQYLCNRAITVSYA 104
Y F+NY+ +D AI +NG L + I VSYA
Sbjct: 82 YGFVNYSDPNDADKAINTLNGLKLQTKTIKVSYA 115
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 48,148,258
Number of Sequences: 369166
Number of extensions: 758268
Number of successful extensions: 2226
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 1996
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): 2191
length of database: 68,354,980
effective HSP length: 105
effective length of database: 48,957,805
effective search space used: 4357244645
frameshift window, decay const: 40, 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)