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= NV060447.seq
(686 letters)
Database: arabidopsis
28,952 sequences; 12,070,560 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
At5g44500.1 68418.m05452 small nuclear ribonucleoprotein associa... 73 2e-13
At4g20440.2 68417.m02983 small nuclear ribonucleoprotein associa... 72 4e-13
At4g20440.1 68417.m02982 small nuclear ribonucleoprotein associa... 72 4e-13
At1g76860.1 68414.m08944 small nuclear ribonucleoprotein, putati... 36 0.033
At1g21190.1 68414.m02649 small nuclear ribonucleoprotein, putati... 36 0.033
At3g62840.1 68416.m07060 small nuclear ribonucleoprotein D2, put... 33 0.18
At3g14080.2 68416.m01780 small nuclear ribonucleoprotein, putati... 33 0.18
At3g14080.1 68416.m01779 small nuclear ribonucleoprotein, putati... 33 0.18
At2g47640.3 68415.m05946 small nuclear ribonucleoprotein D2, put... 33 0.18
At2g47640.2 68415.m05945 small nuclear ribonucleoprotein D2, put... 33 0.18
At2g47640.1 68415.m05944 small nuclear ribonucleoprotein D2, put... 33 0.18
At1g77770.2 68414.m09056 expressed protein 31 0.54
At1g77770.1 68414.m09055 expressed protein 31 0.54
At3g11500.1 68416.m01402 small nuclear ribonucleoprotein G, puta... 30 1.3
At5g10760.1 68418.m01250 aspartyl protease family protein contai... 30 1.7
At2g23930.1 68415.m02857 small nuclear ribonucleoprotein G, puta... 29 3.8
At1g68140.1 68414.m07783 expressed protein 29 3.8
At1g65700.1 68414.m07457 small nuclear ribonucleoprotein, putati... 29 3.8
At4g18372.1 68417.m02725 small nuclear ribonucleoprotein-related... 28 5.0
>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 = 72.5 bits (170), Expect = 2e-13
Identities = 33/65 (50%), Positives = 45/65 (69%)
Frame = +3
Query: 117 MTIGKNNKMQQHINYRVRVILQDSRTFIGTFKAFDKHMNLILGDCENSEKLNLKIVKLQT 296
M++ K++KM Q INYR+RV +QD R IG F AFD+HMNL+LGDCE KL +T
Sbjct: 1 MSMSKSSKMLQFINYRMRVTIQDGRQLIGKFMAFDRHMNLVLGDCEEFRKLPPAKGNKKT 60
Query: 297 EKKKE 311
+++E
Sbjct: 61 NEERE 65
Score = 42.7 bits (96), Expect = 2e-04
Identities = 18/37 (48%), Positives = 24/37 (64%)
Frame = +2
Query: 251 RKFRKIKSKNSKTADREEKRTLGFVLLRGENIVSLTI 361
RK K +REE+RTLG VLLRGE ++S+T+
Sbjct: 49 RKLPPAKGNKKTNEEREERRTLGLVLLRGEEVISMTV 85
>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 = 71.7 bits (168), Expect = 4e-13
Identities = 30/51 (58%), Positives = 39/51 (76%)
Frame = +3
Query: 117 MTIGKNNKMQQHINYRVRVILQDSRTFIGTFKAFDKHMNLILGDCENSEKL 269
M++ K++KM Q INYR+RV +QD R +G F AFD+HMNL+LGDCE KL
Sbjct: 1 MSMSKSSKMLQFINYRMRVTIQDGRQLVGKFMAFDRHMNLVLGDCEEFRKL 51
Score = 40.7 bits (91), Expect = 9e-04
Identities = 18/38 (47%), Positives = 27/38 (71%), Gaps = 2/38 (5%)
Frame = +2
Query: 254 KFRKIKSKNSK--TADREEKRTLGFVLLRGENIVSLTI 361
+FRK+ K +RE++RTLG VLLRGE ++S+T+
Sbjct: 47 EFRKLPPAKGKKINEEREDRRTLGLVLLRGEEVISMTV 84
>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 = 71.7 bits (168), Expect = 4e-13
Identities = 30/51 (58%), Positives = 39/51 (76%)
Frame = +3
Query: 117 MTIGKNNKMQQHINYRVRVILQDSRTFIGTFKAFDKHMNLILGDCENSEKL 269
M++ K++KM Q INYR+RV +QD R +G F AFD+HMNL+LGDCE KL
Sbjct: 1 MSMSKSSKMLQFINYRMRVTIQDGRQLVGKFMAFDRHMNLVLGDCEEFRKL 51
Score = 40.7 bits (91), Expect = 9e-04
Identities = 18/38 (47%), Positives = 27/38 (71%), Gaps = 2/38 (5%)
Frame = +2
Query: 254 KFRKIKSKNSK--TADREEKRTLGFVLLRGENIVSLTI 361
+FRK+ K +RE++RTLG VLLRGE ++S+T+
Sbjct: 47 EFRKLPPAKGKKINEEREDRRTLGLVLLRGEEVISMTV 84
>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 = 35.5 bits (78), Expect = 0.033
Identities = 15/36 (41%), Positives = 23/36 (63%)
Frame = +3
Query: 153 INYRVRVILQDSRTFIGTFKAFDKHMNLILGDCENS 260
++ R+ V L+ R G AFD+H+N+ILGD E +
Sbjct: 20 LDERIYVKLRSDRELRGKLHAFDQHLNMILGDVEET 55
>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 = 35.5 bits (78), Expect = 0.033
Identities = 16/34 (47%), Positives = 21/34 (61%)
Frame = +3
Query: 153 INYRVRVILQDSRTFIGTFKAFDKHMNLILGDCE 254
I R+ V L+ R G AFD+H+N+ILGD E
Sbjct: 20 IEERIYVKLRSDRELRGKLHAFDQHLNMILGDVE 53
>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 = 33.1 bits (72), Expect = 0.18
Identities = 17/53 (32%), Positives = 31/53 (58%)
Frame = +3
Query: 156 NYRVRVILQDSRTFIGTFKAFDKHMNLILGDCENSEKLNLKIVKLQTEKKKEL 314
N +V + +++R +G +AFD+H N++L EN ++ ++ K KKK L
Sbjct: 33 NTQVLINCRNNRKLLGRVRAFDRHCNMVL---ENVREMWTEVPKTGKGKKKAL 82
>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 = 33.1 bits (72), Expect = 0.18
Identities = 13/42 (30%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Frame = +3
Query: 132 NNKMQQHINYRVRVILQDSRTFIGTFKAFDKHMNLIL-GDCE 254
+ + +++ ++ V+L+D R +GT ++FD+ N +L G CE
Sbjct: 12 STSLASYLDRKLLVLLRDGRKLMGTLRSFDQFANAVLEGACE 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 = 33.1 bits (72), Expect = 0.18
Identities = 13/42 (30%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Frame = +3
Query: 132 NNKMQQHINYRVRVILQDSRTFIGTFKAFDKHMNLIL-GDCE 254
+ + +++ ++ V+L+D R +GT ++FD+ N +L G CE
Sbjct: 12 STSLASYLDRKLLVLLRDGRKLMGTLRSFDQFANAVLEGACE 53
>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 = 33.1 bits (72), Expect = 0.18
Identities = 17/53 (32%), Positives = 31/53 (58%)
Frame = +3
Query: 156 NYRVRVILQDSRTFIGTFKAFDKHMNLILGDCENSEKLNLKIVKLQTEKKKEL 314
N +V + +++R +G +AFD+H N++L EN ++ ++ K KKK L
Sbjct: 33 NTQVLINCRNNRKLLGRVRAFDRHCNMVL---ENVREMWTEVPKTGKGKKKAL 82
>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 = 33.1 bits (72), Expect = 0.18
Identities = 17/53 (32%), Positives = 31/53 (58%)
Frame = +3
Query: 156 NYRVRVILQDSRTFIGTFKAFDKHMNLILGDCENSEKLNLKIVKLQTEKKKEL 314
N +V + +++R +G +AFD+H N++L EN ++ ++ K KKK L
Sbjct: 33 NTQVLINCRNNRKLLGRVRAFDRHCNMVL---ENVREMWTEVPKTGKGKKKAL 82
>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 = 33.1 bits (72), Expect = 0.18
Identities = 17/53 (32%), Positives = 31/53 (58%)
Frame = +3
Query: 156 NYRVRVILQDSRTFIGTFKAFDKHMNLILGDCENSEKLNLKIVKLQTEKKKEL 314
N +V + +++R +G +AFD+H N++L EN ++ ++ K KKK L
Sbjct: 34 NTQVLINCRNNRKLLGRVRAFDRHCNMVL---ENVREMWTEVPKTGKGKKKAL 83
>At1g77770.2 68414.m09056 expressed protein
Length = 264
Score = 31.5 bits (68), Expect = 0.54
Identities = 14/37 (37%), Positives = 23/37 (62%)
Frame = +3
Query: 120 TIGKNNKMQQHINYRVRVILQDSRTFIGTFKAFDKHM 230
T+ K+ +M H N + R +QD+ +F+G F+ KHM
Sbjct: 98 TVVKDARM--HFNSKRRTCMQDNCSFLGNFRKLKKHM 132
>At1g77770.1 68414.m09055 expressed protein
Length = 265
Score = 31.5 bits (68), Expect = 0.54
Identities = 14/37 (37%), Positives = 23/37 (62%)
Frame = +3
Query: 120 TIGKNNKMQQHINYRVRVILQDSRTFIGTFKAFDKHM 230
T+ K+ +M H N + R +QD+ +F+G F+ KHM
Sbjct: 98 TVVKDARM--HFNSKRRTCMQDNCSFLGNFRKLKKHM 132
>At3g11500.1 68416.m01402 small nuclear ribonucleoprotein G,
putative / snRNP-G, putative / Sm protein G, putative
similar to SWISS-PROT:Q15357 small nuclear
ribonucleoprotein G (snRNP-G, Sm protein G, Sm-G, SmG)
[Homo sapiens]
Length = 79
Score = 30.3 bits (65), Expect = 1.3
Identities = 10/39 (25%), Positives = 27/39 (69%)
Frame = +3
Query: 126 GKNNKMQQHINYRVRVILQDSRTFIGTFKAFDKHMNLIL 242
G+ ++++++ ++++ L +R +GT + FD+ MNL++
Sbjct: 5 GQPPDLKKYMDKKLQIKLNANRMVVGTLRGFDQFMNLVV 43
>At5g10760.1 68418.m01250 aspartyl protease family protein contains
Pfam domain, PF00026: eukaryotic aspartyl protease
Length = 464
Score = 29.9 bits (64), Expect = 1.7
Identities = 12/24 (50%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Frame = -1
Query: 599 RATH-HGASSHLKEEQKVDHDFLV 531
R H HGA SHL + +VDHD ++
Sbjct: 66 RVVHMHGACSHLSSDARVDHDEII 89
>At2g23930.1 68415.m02857 small nuclear ribonucleoprotein G,
putative / snRNP-G, putative / Sm protein G, putative
similar to small nuclear ribonucleoprotein G (snRNP-G,
Sm protein G, Sm-G, SmG) [Homo sapiens]
SWISS-PROT:Q15357
Length = 80
Score = 28.7 bits (61), Expect = 3.8
Identities = 10/39 (25%), Positives = 26/39 (66%)
Frame = +3
Query: 126 GKNNKMQQHINYRVRVILQDSRTFIGTFKAFDKHMNLIL 242
G+ ++++++ ++++ L +R GT + FD+ MNL++
Sbjct: 5 GQPPDLKKYMDKKLQIKLNANRMVTGTLRGFDQFMNLVV 43
>At1g68140.1 68414.m07783 expressed protein
Length = 334
Score = 28.7 bits (61), Expect = 3.8
Identities = 10/28 (35%), Positives = 18/28 (64%)
Frame = +3
Query: 153 INYRVRVILQDSRTFIGTFKAFDKHMNL 236
+N + R+ +Q++ + GTFK KHM +
Sbjct: 140 LNLKKRICMQENCVYAGTFKELRKHMKV 167
>At1g65700.1 68414.m07457 small nuclear ribonucleoprotein, putative
/ snRNP, putative / Sm protein, putative similar to U6
snRNA-associated Sm-like protein LSm8 [Homo sapiens]
SWISS-PROT:O95777
Length = 98
Score = 28.7 bits (61), Expect = 3.8
Identities = 11/28 (39%), Positives = 16/28 (57%)
Frame = +3
Query: 165 VRVILQDSRTFIGTFKAFDKHMNLILGD 248
+ VI D R +G K FD+ N+IL +
Sbjct: 15 ISVITNDGRNIVGVLKGFDQATNIILDE 42
>At4g18372.1 68417.m02725 small nuclear ribonucleoprotein-related /
snRNP-related contains similarity to snRNP-associated
polypeptide N [Rattus norvegicus] GP|206694|gb|AAA42059
Length = 112
Score = 28.3 bits (60), Expect = 5.0
Identities = 12/38 (31%), Positives = 24/38 (63%)
Frame = +3
Query: 135 NKMQQHINYRVRVILQDSRTFIGTFKAFDKHMNLILGD 248
+++++ + ++ V ++D R F+G F DK N+IL D
Sbjct: 25 SRLRKLLFRQMLVGIKDGRFFLGNFHCIDKQGNIILQD 62
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: 12,431,334
Number of Sequences: 28952
Number of extensions: 223038
Number of successful extensions: 598
Number of sequences better than 10.0: 19
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): 597
length of database: 12,070,560
effective HSP length: 79
effective length of database: 9,783,352
effective search space used: 1457719448
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)
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