Last updated: 2022/11/18
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= wdV40232
(653 letters)
Database: arabidopsis
28,952 sequences; 12,070,560 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
At1g06960.2 68414.m00741 small nuclear ribonucleoprotein U2B, pu... 62 2e-10
At1g06960.1 68414.m00740 small nuclear ribonucleoprotein U2B, pu... 62 2e-10
At2g30260.1 68415.m03684 small nuclear ribonucleoprotein U2B, pu... 61 7e-10
At2g47580.1 68415.m05937 small nuclear ribonucleoprotein U1A / s... 60 1e-09
At1g78260.2 68414.m09119 RNA recognition motif (RRM)-containing ... 32 0.29
At1g78260.1 68414.m09120 RNA recognition motif (RRM)-containing ... 32 0.29
At5g53680.1 68418.m06668 RNA recognition motif (RRM)-containing ... 31 0.88
At4g26650.1 68417.m03840 RNA recognition motif (RRM)-containing ... 30 1.5
At5g47620.3 68418.m05877 heterogeneous nuclear ribonucleoprotein... 29 3.6
At5g47620.2 68418.m05879 heterogeneous nuclear ribonucleoprotein... 29 3.6
At5g47620.1 68418.m05878 heterogeneous nuclear ribonucleoprotein... 29 3.6
>At1g06960.2 68414.m00741 small nuclear ribonucleoprotein U2B,
putative / spliceosomal protein, putative non-consensus
splice donor GC at exon 4; similar to spliceosomal
protein (U2B) GI:169588 from [Solanum tuberosum]
Length = 228
Score = 62.5 bits (145), Expect = 2e-10
Identities = 26/53 (49%), Positives = 42/53 (79%)
Frame = +1
Query: 223 KRRIKEVTLCKFSQFGQILDIVAMKTLKMRGQAFVIFKEISSATVALRRCKDF 381
K +K C FSQFG++LD+VA+KT K+RGQA+V+F E+++A+ A+R+ ++F
Sbjct: 23 KEELKRSLYCLFSQFGRLLDVVALKTPKLRGQAWVVFTEVTAASNAVRQMQNF 75
Score = 54.4 bits (125), Expect = 6e-08
Identities = 22/39 (56%), Positives = 30/39 (76%)
Frame = +3
Query: 366 EMQGFPFYDKPMRIQYSKIDSDIIAKSKGTFQERPKRPK 482
+MQ FPFYDKPMRIQY+K SD + K++G+F + K+ K
Sbjct: 71 QMQNFPFYDKPMRIQYAKSKSDYVTKAEGSFVPKEKKMK 109
>At1g06960.1 68414.m00740 small nuclear ribonucleoprotein U2B,
putative / spliceosomal protein, putative non-consensus
splice donor GC at exon 4; similar to spliceosomal
protein (U2B) GI:169588 from [Solanum tuberosum]
Length = 229
Score = 62.5 bits (145), Expect = 2e-10
Identities = 26/53 (49%), Positives = 42/53 (79%)
Frame = +1
Query: 223 KRRIKEVTLCKFSQFGQILDIVAMKTLKMRGQAFVIFKEISSATVALRRCKDF 381
K +K C FSQFG++LD+VA+KT K+RGQA+V+F E+++A+ A+R+ ++F
Sbjct: 23 KEELKRSLYCLFSQFGRLLDVVALKTPKLRGQAWVVFTEVTAASNAVRQMQNF 75
Score = 54.4 bits (125), Expect = 6e-08
Identities = 22/39 (56%), Positives = 30/39 (76%)
Frame = +3
Query: 366 EMQGFPFYDKPMRIQYSKIDSDIIAKSKGTFQERPKRPK 482
+MQ FPFYDKPMRIQY+K SD + K++G+F + K+ K
Sbjct: 71 QMQNFPFYDKPMRIQYAKSKSDYVTKAEGSFVPKEKKMK 109
>At2g30260.1 68415.m03684 small nuclear ribonucleoprotein U2B,
putative / spliceosomal protein, putative similar to
spliceosomal protein [Solanum tuberosum] GI:169589
Length = 232
Score = 60.9 bits (141), Expect = 7e-10
Identities = 27/53 (50%), Positives = 40/53 (75%)
Frame = +1
Query: 223 KRRIKEVTLCKFSQFGQILDIVAMKTLKMRGQAFVIFKEISSATVALRRCKDF 381
K +K C FSQFG+ILD+VA+KT K+RGQA+V F E+++A A+R+ ++F
Sbjct: 23 KEELKRSLYCLFSQFGRILDVVALKTPKLRGQAWVTFSEVTAAGHAVRQMQNF 75
Score = 56.8 bits (131), Expect = 1e-08
Identities = 23/39 (58%), Positives = 31/39 (79%)
Frame = +3
Query: 366 EMQGFPFYDKPMRIQYSKIDSDIIAKSKGTFQERPKRPK 482
+MQ FPFYDKPMR+QY+K SD +AK++GTF + K+ K
Sbjct: 71 QMQNFPFYDKPMRLQYAKAKSDCLAKAEGTFVPKDKKRK 109
Score = 29.9 bits (64), Expect = 1.5
Identities = 12/30 (40%), Positives = 16/30 (53%)
Frame = +2
Query: 545 HGIPGAGILNNVNAEQPPNQILFLTNLPDE 634
+G+P + PPN ILF+ NLP E
Sbjct: 139 NGVPAPSFQPSGQETMPPNNILFIQNLPHE 168
>At2g47580.1 68415.m05937 small nuclear ribonucleoprotein U1A /
spliceosomal protein U1A / U1snRNP-specific protein
identical to GB:Z49991 U1snRNP-specific protein
[Arabidopsis thaliana]
Length = 250
Score = 60.5 bits (140), Expect = 1e-09
Identities = 32/86 (37%), Positives = 45/86 (52%)
Frame = +3
Query: 225 KKN*RSHFMQIFTIWSNIGYSSNENLKNAWPSICYFQGNFKCHCCFAEMQGFPFYDKPMR 404
KK+ + F Q I + + + ++ AW F A+M FPFYDK MR
Sbjct: 35 KKSLNAVFSQFGKILEILAFKTFKHKGQAW---VVFDNTESASTAIAKMNNFPFYDKEMR 91
Query: 405 IQYSKIDSDIIAKSKGTFQERPKRPK 482
IQY+K SD++AK+ GTF R KR +
Sbjct: 92 IQYAKTKSDVVAKADGTFVPREKRKR 117
Score = 29.5 bits (63), Expect = 2.0
Identities = 14/27 (51%), Positives = 15/27 (55%)
Frame = +2
Query: 554 PGAGILNNVNAEQPPNQILFLTNLPDE 634
PG N A PPN ILF+ NLP E
Sbjct: 161 PGGMKPNMPEAPAPPNNILFVQNLPHE 187
>At1g78260.2 68414.m09119 RNA recognition motif (RRM)-containing
protein similar to RNA recognition motif-containing
protein SEB-4 GI:8895698 from [Xenopus laevis]; contains
InterPro entry IPR000504: RNA-binding region RNP-1 (RNA
recognition motif) (RRM)
Length = 271
Score = 32.3 bits (70), Expect = 0.29
Identities = 18/39 (46%), Positives = 24/39 (61%), Gaps = 3/39 (7%)
Frame = +1
Query: 256 FSQFGQILDIVAM---KTLKMRGQAFVIFKEISSATVAL 363
F QFG+IL+ V + T K +G FV F+E SAT A+
Sbjct: 37 FEQFGEILEAVIITDKNTGKSKGYGFVTFRESDSATRAV 75
>At1g78260.1 68414.m09120 RNA recognition motif (RRM)-containing
protein similar to RNA recognition motif-containing
protein SEB-4 GI:8895698 from [Xenopus laevis]; contains
InterPro entry IPR000504: RNA-binding region RNP-1 (RNA
recognition motif) (RRM)
Length = 287
Score = 32.3 bits (70), Expect = 0.29
Identities = 18/39 (46%), Positives = 24/39 (61%), Gaps = 3/39 (7%)
Frame = +1
Query: 256 FSQFGQILDIVAM---KTLKMRGQAFVIFKEISSATVAL 363
F QFG+IL+ V + T K +G FV F+E SAT A+
Sbjct: 37 FEQFGEILEAVIITDKNTGKSKGYGFVTFRESDSATRAV 75
>At5g53680.1 68418.m06668 RNA recognition motif (RRM)-containing
protein low similarity to RRM-containing protein SEB-4
[Xenopus laevis] GI:8895698; contains InterPro entry
IPR000504: RNA-binding region RNP-1 (RNA recognition
motif) (RRM)
Length = 169
Score = 30.7 bits (66), Expect = 0.88
Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Frame = +1
Query: 235 KEVTLCKFSQFGQILDIVAM---KTLKMRGQAFVIFKEISSATVALRRCKD 378
KE + F +FG+I+ + + +T + +G FV FK+ SAT R CKD
Sbjct: 26 KEGLINFFKRFGEIIHVNVVCDRETDRSQGYGFVTFKDAESAT---RACKD 73
>At4g26650.1 68417.m03840 RNA recognition motif (RRM)-containing
protein contains Pfam profile: PF00076 RNA recognition
motif. (a.k.a. RRM, RBD, or RNP domain)
Length = 455
Score = 29.9 bits (64), Expect = 1.5
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Frame = +1
Query: 256 FSQFGQILDIVAM---KTLKMRGQAFVIFKEISSATVALRRCKDFHSM 390
F QFG I D+V M T + RG F+ F S + L K FH +
Sbjct: 142 FDQFGTIADVVVMYDHNTQRPRGFGFITFDSEESVDMVLH--KTFHEL 187
>At5g47620.3 68418.m05877 heterogeneous nuclear ribonucleoprotein,
putative / hnRNP, putative
Length = 358
Score = 28.7 bits (61), Expect = 3.6
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 3/80 (3%)
Frame = +1
Query: 256 FSQFGQILDIVAM---KTLKMRGQAFVIFKEISSATVALRRCKDFHSMINQ*EFSIQKLI 426
F+QFG I D+V M +T + RG F+ + + L+ K FH + + ++ +
Sbjct: 53 FAQFGMITDVVVMYDHRTQRPRGFGFISYDSEEAVDKVLQ--KTFHELNGK---MVEVKL 107
Query: 427 VI**QKVKEHFKNDLNVQSY 486
+ +N +NV S+
Sbjct: 108 AVPKDMALNTMRNQMNVNSF 127
>At5g47620.2 68418.m05879 heterogeneous nuclear ribonucleoprotein,
putative / hnRNP, putative
Length = 431
Score = 28.7 bits (61), Expect = 3.6
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 3/80 (3%)
Frame = +1
Query: 256 FSQFGQILDIVAM---KTLKMRGQAFVIFKEISSATVALRRCKDFHSMINQ*EFSIQKLI 426
F+QFG I D+V M +T + RG F+ + + L+ K FH + + ++ +
Sbjct: 126 FAQFGMITDVVVMYDHRTQRPRGFGFISYDSEEAVDKVLQ--KTFHELNGK---MVEVKL 180
Query: 427 VI**QKVKEHFKNDLNVQSY 486
+ +N +NV S+
Sbjct: 181 AVPKDMALNTMRNQMNVNSF 200
>At5g47620.1 68418.m05878 heterogeneous nuclear ribonucleoprotein,
putative / hnRNP, putative
Length = 431
Score = 28.7 bits (61), Expect = 3.6
Identities = 20/80 (25%), Positives = 37/80 (46%), Gaps = 3/80 (3%)
Frame = +1
Query: 256 FSQFGQILDIVAM---KTLKMRGQAFVIFKEISSATVALRRCKDFHSMINQ*EFSIQKLI 426
F+QFG I D+V M +T + RG F+ + + L+ K FH + + ++ +
Sbjct: 126 FAQFGMITDVVVMYDHRTQRPRGFGFISYDSEEAVDKVLQ--KTFHELNGK---MVEVKL 180
Query: 427 VI**QKVKEHFKNDLNVQSY 486
+ +N +NV S+
Sbjct: 181 AVPKDMALNTMRNQMNVNSF 200
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: 13,359,506
Number of Sequences: 28952
Number of extensions: 260017
Number of successful extensions: 595
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 572
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): 594
length of database: 12,070,560
effective HSP length: 78
effective length of database: 9,812,304
effective search space used: 1363910256
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)
- SilkBase 1999-2023 -