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= brS-0182
(669 letters)
Database: arabidopsis
28,952 sequences; 12,070,560 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
At2g47640.1 68415.m05944 small nuclear ribonucleoprotein D2, put... 162 2e-40
At3g62840.1 68416.m07060 small nuclear ribonucleoprotein D2, put... 161 4e-40
At2g47640.3 68415.m05946 small nuclear ribonucleoprotein D2, put... 161 4e-40
At2g47640.2 68415.m05945 small nuclear ribonucleoprotein D2, put... 161 4e-40
At1g76860.1 68414.m08944 small nuclear ribonucleoprotein, putati... 54 7e-08
At1g21190.1 68414.m02649 small nuclear ribonucleoprotein, putati... 52 3e-07
At5g44500.1 68418.m05452 small nuclear ribonucleoprotein associa... 37 0.014
At4g20440.2 68417.m02983 small nuclear ribonucleoprotein associa... 36 0.032
At4g20440.1 68417.m02982 small nuclear ribonucleoprotein associa... 36 0.032
At5g48870.1 68418.m06045 small nuclear ribonucleoprotein, putati... 31 0.52
At3g14080.2 68416.m01780 small nuclear ribonucleoprotein, putati... 30 1.2
At3g14080.1 68416.m01779 small nuclear ribonucleoprotein, putati... 30 1.2
At1g19120.1 68414.m02378 small nuclear ribonucleoprotein, putati... 30 1.2
At4g30330.1 68417.m04311 small nuclear ribonucleoprotein E, puta... 28 4.9
At2g18740.1 68415.m02182 small nuclear ribonucleoprotein E, puta... 28 4.9
>At2g47640.1 68415.m05944 small nuclear ribonucleoprotein D2,
putative / snRNP core protein D2, putative / Sm protein
D2, putative similar to small nuclear ribonucleoprotein
Sm D2 (snRNP core protein D2) (Sm-D2) [Mus musculus]
SWISS-PROT:P43330
Length = 109
Score = 162 bits (393), Expect = 2e-40
Identities = 80/109 (73%), Positives = 89/109 (81%), Gaps = 1/109 (0%)
Frame = +2
Query: 71 TKPRSEMTLXXLSKIEEEEFSTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCN 250
+KP E T K EEEEF+TGPLSVL SVKNNTQVLINCRNN+KLLGRV+AFDRHCN
Sbjct: 2 SKPMEEDT--NQGKTEEEEFNTGPLSVLMMSVKNNTQVLINCRNNRKLLGRVRAFDRHCN 59
Query: 251 MVLENVKEMWTEVPRT-XXXXXXXAVNKDKFISKMFLRGDSVILVLRNP 394
MVLENV+EMWTEVP+T VN+D+FISKMFLRGDSVI+VLRNP
Sbjct: 60 MVLENVREMWTEVPKTGKGKKKALPVNRDRFISKMFLRGDSVIIVLRNP 108
>At3g62840.1 68416.m07060 small nuclear ribonucleoprotein D2,
putative / snRNP core protein D2, putative / Sm protein
D2, putative similar to small nuclear ribonucleoprotein
Sm D2 (snRNP core protein D2) (Sm-D2) [Mus musculus]
SWISS-PROT:P43330
Length = 108
Score = 161 bits (391), Expect = 4e-40
Identities = 80/109 (73%), Positives = 89/109 (81%), Gaps = 1/109 (0%)
Frame = +2
Query: 71 TKPRSEMTLXXLSKIEEEEFSTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCN 250
+KP E T K EEEEF+TGPLSVL SVKNNTQVLINCRNN+KLLGRV+AFDRHCN
Sbjct: 2 SKPMEEDTN---GKTEEEEFNTGPLSVLMMSVKNNTQVLINCRNNRKLLGRVRAFDRHCN 58
Query: 251 MVLENVKEMWTEVPRT-XXXXXXXAVNKDKFISKMFLRGDSVILVLRNP 394
MVLENV+EMWTEVP+T VN+D+FISKMFLRGDSVI+VLRNP
Sbjct: 59 MVLENVREMWTEVPKTGKGKKKALPVNRDRFISKMFLRGDSVIIVLRNP 107
>At2g47640.3 68415.m05946 small nuclear ribonucleoprotein D2,
putative / snRNP core protein D2, putative / Sm protein
D2, putative similar to small nuclear ribonucleoprotein
Sm D2 (snRNP core protein D2) (Sm-D2) [Mus musculus]
SWISS-PROT:P43330
Length = 108
Score = 161 bits (391), Expect = 4e-40
Identities = 80/109 (73%), Positives = 89/109 (81%), Gaps = 1/109 (0%)
Frame = +2
Query: 71 TKPRSEMTLXXLSKIEEEEFSTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCN 250
+KP E T K EEEEF+TGPLSVL SVKNNTQVLINCRNN+KLLGRV+AFDRHCN
Sbjct: 2 SKPMEEDTN---GKTEEEEFNTGPLSVLMMSVKNNTQVLINCRNNRKLLGRVRAFDRHCN 58
Query: 251 MVLENVKEMWTEVPRT-XXXXXXXAVNKDKFISKMFLRGDSVILVLRNP 394
MVLENV+EMWTEVP+T VN+D+FISKMFLRGDSVI+VLRNP
Sbjct: 59 MVLENVREMWTEVPKTGKGKKKALPVNRDRFISKMFLRGDSVIIVLRNP 107
>At2g47640.2 68415.m05945 small nuclear ribonucleoprotein D2,
putative / snRNP core protein D2, putative / Sm protein
D2, putative similar to small nuclear ribonucleoprotein
Sm D2 (snRNP core protein D2) (Sm-D2) [Mus musculus]
SWISS-PROT:P43330
Length = 108
Score = 161 bits (391), Expect = 4e-40
Identities = 80/109 (73%), Positives = 89/109 (81%), Gaps = 1/109 (0%)
Frame = +2
Query: 71 TKPRSEMTLXXLSKIEEEEFSTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCN 250
+KP E T K EEEEF+TGPLSVL SVKNNTQVLINCRNN+KLLGRV+AFDRHCN
Sbjct: 2 SKPMEEDTN---GKTEEEEFNTGPLSVLMMSVKNNTQVLINCRNNRKLLGRVRAFDRHCN 58
Query: 251 MVLENVKEMWTEVPRT-XXXXXXXAVNKDKFISKMFLRGDSVILVLRNP 394
MVLENV+EMWTEVP+T VN+D+FISKMFLRGDSVI+VLRNP
Sbjct: 59 MVLENVREMWTEVPKTGKGKKKALPVNRDRFISKMFLRGDSVIIVLRNP 107
>At1g76860.1 68414.m08944 small nuclear ribonucleoprotein, putative
/ snRNP, putative / Sm protein, putative similar to
SWISS-PROT:Q9Y4Z1 U6 snRNA-associated Sm-like protein
LSm3 (MDS017) [Mouse]
Length = 98
Score = 54.4 bits (125), Expect = 7e-08
Identities = 34/98 (34%), Positives = 54/98 (55%)
Frame = +2
Query: 116 EEEEFSTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPR 295
EEE PL ++ S+ + ++ + R++++L G++ AFD+H NM+L +V+E T V
Sbjct: 4 EEEATVREPLDLIRLSL--DERIYVKLRSDRELRGKLHAFDQHLNMILGDVEETITTVEI 61
Query: 296 TXXXXXXXAVNKDKFISKMFLRGDSVILVLRNPLATAA 409
+ I +F+RGD VILV PL TAA
Sbjct: 62 DDETYEEIVRTTKRTIEFLFVRGDGVILV-SPPLRTAA 98
>At1g21190.1 68414.m02649 small nuclear ribonucleoprotein, putative
/ snRNP, putative / Sm protein, putative similar to
SWISS-PROT:Q9Y4Z1 U6 snRNA-associated Sm-like protein
LSm3 (MDS017) [Mouse]
Length = 97
Score = 52.0 bits (119), Expect = 3e-07
Identities = 29/97 (29%), Positives = 54/97 (55%)
Frame = +2
Query: 113 IEEEEFSTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVP 292
+EE+ PL ++ S++ ++ + R++++L G++ AFD+H NM+L +V+E+ T +
Sbjct: 3 VEEDATVREPLDLIRLSIEE--RIYVKLRSDRELRGKLHAFDQHLNMILGDVEEVITTIE 60
Query: 293 RTXXXXXXXAVNKDKFISKMFLRGDSVILVLRNPLAT 403
+ + +F+RGD VILV PL T
Sbjct: 61 IDDETYEEIVRTTKRTVPFLFVRGDGVILV-SPPLRT 96
>At5g44500.1 68418.m05452 small nuclear ribonucleoprotein associated
protein B, putative / snRNP-B, putative / Sm protein B,
putative similar to SP|P27048 Small nuclear
ribonucleoprotein associated protein B (snRNP-B) (Sm
protein B) (Sm-B) (SmB) {Mus musculus}
Length = 254
Score = 36.7 bits (81), Expect = 0.014
Identities = 18/68 (26%), Positives = 35/68 (51%)
Frame = +2
Query: 173 NTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPRTXXXXXXXAVNKDKFISKM 352
N ++ + ++ ++L+G+ AFDRH N+VL + +E P + + + +
Sbjct: 14 NYRMRVTIQDGRQLIGKFMAFDRHMNLVLGDCEEFRKLPPAKGNKKTNEEREERRTLGLV 73
Query: 353 FLRGDSVI 376
LRG+ VI
Sbjct: 74 LLRGEEVI 81
>At4g20440.2 68417.m02983 small nuclear ribonucleoprotein associated
protein B, putative / snRNP-B, putative / Sm protein B,
putative similar to SP|Q05856 Small nuclear
ribonucleoprotein associated protein B (snRNP-B) (Sm
protein B) (Sm-B) (SmB) {Drosophila melanogaster}
Length = 257
Score = 35.5 bits (78), Expect = 0.032
Identities = 18/68 (26%), Positives = 37/68 (54%)
Frame = +2
Query: 173 NTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPRTXXXXXXXAVNKDKFISKM 352
N ++ + ++ ++L+G+ AFDRH N+VL + +E + ++P + + +
Sbjct: 14 NYRMRVTIQDGRQLVGKFMAFDRHMNLVLGDCEE-FRKLPPAKGKKINEEREDRRTLGLV 72
Query: 353 FLRGDSVI 376
LRG+ VI
Sbjct: 73 LLRGEEVI 80
>At4g20440.1 68417.m02982 small nuclear ribonucleoprotein associated
protein B, putative / snRNP-B, putative / Sm protein B,
putative similar to SP|Q05856 Small nuclear
ribonucleoprotein associated protein B (snRNP-B) (Sm
protein B) (Sm-B) (SmB) {Drosophila melanogaster}
Length = 257
Score = 35.5 bits (78), Expect = 0.032
Identities = 18/68 (26%), Positives = 37/68 (54%)
Frame = +2
Query: 173 NTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPRTXXXXXXXAVNKDKFISKM 352
N ++ + ++ ++L+G+ AFDRH N+VL + +E + ++P + + +
Sbjct: 14 NYRMRVTIQDGRQLVGKFMAFDRHMNLVLGDCEE-FRKLPPAKGKKINEEREDRRTLGLV 72
Query: 353 FLRGDSVI 376
LRG+ VI
Sbjct: 73 LLRGEEVI 80
>At5g48870.1 68418.m06045 small nuclear ribonucleoprotein, putative
/ snRNP, putative / Sm protein, putative similar to U6
snRNA-associated Sm-like protein LSm5 [Homo sapiens]
SWISS-PROT:Q9Y4Y9
Length = 88
Score = 31.5 bits (68), Expect = 0.52
Identities = 13/33 (39%), Positives = 24/33 (72%)
Frame = +2
Query: 176 TQVLINCRNNKKLLGRVKAFDRHCNMVLENVKE 274
+++ + + +K+L+G +K FD + NMVLE+V E
Sbjct: 20 SKIWVIMKGDKELVGILKGFDVYVNMVLEDVTE 52
>At3g14080.2 68416.m01780 small nuclear ribonucleoprotein, putative
/ snRNP, putative / Sm protein, putative similar to U6
snRNA-associated Sm-like protein LSm1 (Small nuclear
ribonuclear CaSm, Cancer-associated Sm-like) [Homo
sapiens] SWISS-PROT:O15116; contains Pfam profile:
PF01423 Sm protein
Length = 128
Score = 30.3 bits (65), Expect = 1.2
Identities = 12/32 (37%), Positives = 22/32 (68%)
Frame = +2
Query: 179 QVLINCRNNKKLLGRVKAFDRHCNMVLENVKE 274
++L+ R+ +KL+G +++FD+ N VLE E
Sbjct: 22 KLLVLLRDGRKLMGTLRSFDQFANAVLEGACE 53
>At3g14080.1 68416.m01779 small nuclear ribonucleoprotein, putative
/ snRNP, putative / Sm protein, putative similar to U6
snRNA-associated Sm-like protein LSm1 (Small nuclear
ribonuclear CaSm, Cancer-associated Sm-like) [Homo
sapiens] SWISS-PROT:O15116; contains Pfam profile:
PF01423 Sm protein
Length = 128
Score = 30.3 bits (65), Expect = 1.2
Identities = 12/32 (37%), Positives = 22/32 (68%)
Frame = +2
Query: 179 QVLINCRNNKKLLGRVKAFDRHCNMVLENVKE 274
++L+ R+ +KL+G +++FD+ N VLE E
Sbjct: 22 KLLVLLRDGRKLMGTLRSFDQFANAVLEGACE 53
>At1g19120.1 68414.m02378 small nuclear ribonucleoprotein, putative
/ snRNP, putative / Sm protein, putative similar to U6
snRNA-associated Sm-like protein LSm1 (Small nuclear
ribonuclear CaSm, Cancer-associated Sm-like) [Homo
sapiens] SWISS-PROT:O15116
Length = 128
Score = 30.3 bits (65), Expect = 1.2
Identities = 12/32 (37%), Positives = 22/32 (68%)
Frame = +2
Query: 179 QVLINCRNNKKLLGRVKAFDRHCNMVLENVKE 274
++L+ R+ +KL+G +++FD+ N VLE E
Sbjct: 22 KLLVLLRDGRKLMGLLRSFDQFANAVLEEAYE 53
>At4g30330.1 68417.m04311 small nuclear ribonucleoprotein E,
putative / snRNP-E, putative / Sm protein E, putative
similar to SWISS-PROT:P08578 small nuclear
ribonucleoprotein E (snRNP-E) (Sm protein E, Sm-E, SmE)
[Chicken]
Length = 88
Score = 28.3 bits (60), Expect = 4.9
Identities = 13/60 (21%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Frame = +2
Query: 104 LSKIEEEEFSTGPLSVLTQSVKNNTQVLINCRNNKKLL--GRVKAFDRHCNMVLENVKEM 277
++ + + T P++++ + +++ ++ I K L GR+ FD + N+VL+ +E+
Sbjct: 1 MASTKVQRIMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRITGFDEYMNLVLDEAEEV 60
>At2g18740.1 68415.m02182 small nuclear ribonucleoprotein E,
putative / snRNP-E, putative / Sm protein E, putative
similar to SWISS-PROT:P08578 small nuclear
ribonucleoprotein E (snRNP-E) (Sm protein E, Sm-E, SmE)
[Chicken]
Length = 88
Score = 28.3 bits (60), Expect = 4.9
Identities = 13/60 (21%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Frame = +2
Query: 104 LSKIEEEEFSTGPLSVLTQSVKNNTQVLINCRNNKKLL--GRVKAFDRHCNMVLENVKEM 277
++ + + T P++++ + +++ ++ I K L GR+ FD + N+VL+ +E+
Sbjct: 1 MASTKVQRIMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRITGFDEYMNLVLDEAEEV 60
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: 13,194,455
Number of Sequences: 28952
Number of extensions: 257469
Number of successful extensions: 558
Number of sequences better than 10.0: 15
Number of HSP's better than 10.0 without gapping: 545
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): 552
length of database: 12,070,560
effective HSP length: 78
effective length of database: 9,812,304
effective search space used: 1412971776
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 -