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= fcaL-P01_F_K13
(766 letters)
Database: arabidopsis
28,952 sequences; 12,070,560 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
At4g02840.1 68417.m00384 small nuclear ribonucleoprotein D1, put... 117 1e-26
At3g07590.1 68416.m00909 small nuclear ribonucleoprotein D1, put... 113 9e-26
At1g20580.1 68414.m02569 small nuclear ribonucleoprotein, putati... 42 4e-04
At5g27720.1 68418.m03325 small nuclear ribonucleoprotein, putati... 40 0.001
At1g76300.1 68414.m08862 small nuclear ribonucleoprotein D3, put... 38 0.007
At1g03330.1 68414.m00312 small nuclear ribonucleoprotein D, puta... 37 0.013
At3g59810.1 68416.m06674 small nuclear ribonucleoprotein F, puta... 32 0.36
At2g43810.1 68415.m05446 small nuclear ribonucleoprotein F, puta... 29 3.4
At3g11964.1 68416.m01479 S1 RNA-binding domain-containing protei... 28 7.8
>At4g02840.1 68417.m00384 small nuclear ribonucleoprotein D1,
putative / snRNP core protein D1, putative / Sm protein
D1, putative similar to small nuclear ribonucleoprotein
Sm D1 (snRNP core protein D1, Sm-D1, Sm-D autoantigen)
[Mouse] SWISS-PROT:P13641
Length = 116
Score = 117 bits (281), Expect = 1e-26
Identities = 54/86 (62%), Positives = 68/86 (79%)
Frame = +3
Query: 114 MKLVRFLMKLSHEXVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSI 293
MKLVRFLMKL++E V+IELKNG++VHGTITGVDV+MNTHLKAVK+TLK + + L+ LS+
Sbjct: 1 MKLVRFLMKLNNETVSIELKNGTIVHGTITGVDVSMNTHLKAVKLTLKGKNPVTLDHLSV 60
Query: 294 RGNNIRYYXXXXXXXXXXXXIDDTPK 371
RGNNIRYY ++DTP+
Sbjct: 61 RGNNIRYYILPDSLNLETLLVEDTPR 86
>At3g07590.1 68416.m00909 small nuclear ribonucleoprotein D1,
putative / snRNP core protein D1, putative / Sm protein
D1, putative similar to SWISS-PROT:SP|P13641 small
nuclear ribonucleoprotein Sm D1 (snRNP core protein D1,
Sm-D1, Sm-D autoantigen)[Mouse]
Length = 114
Score = 113 bits (273), Expect = 9e-26
Identities = 53/86 (61%), Positives = 67/86 (77%)
Frame = +3
Query: 114 MKLVRFLMKLSHEXVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSI 293
MKLVRFLMKL++E V+IELKNG+VVHGTITGVDV+MNTHLK VK++LK + + L+ LS+
Sbjct: 1 MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDVSMNTHLKTVKMSLKGKNPVTLDHLSL 60
Query: 294 RGNNIRYYXXXXXXXXXXXXIDDTPK 371
RGNNIRYY ++DTP+
Sbjct: 61 RGNNIRYYILPDSLNLETLLVEDTPR 86
>At1g20580.1 68414.m02569 small nuclear ribonucleoprotein, putative
/ snRNP, putative / Sm protein, putative similar to
small nuclear ribonucleoprotein Sm D3 (snRNP core
protein D3, Sm-D3) [Mus musculus] SWISS-PROT:P43331
Length = 131
Score = 41.9 bits (94), Expect = 4e-04
Identities = 21/64 (32%), Positives = 37/64 (57%)
Frame = +3
Query: 123 VRFLMKLSHEXVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSIRGN 302
V+ L + S VT+ELK+G + G++ + N L+ + T K+ + QLE + IRG+
Sbjct: 9 VKLLHEASGHIVTVELKSGELYRGSMIECEDNWNCQLEDITYTAKDGKVSQLEHVFIRGS 68
Query: 303 NIRY 314
+R+
Sbjct: 69 KVRF 72
>At5g27720.1 68418.m03325 small nuclear ribonucleoprotein, putative
/ snRNP, putative / Sm protein, putative similar to
SWISS-PROT:Q9QXA5 U6 snRNA-associated Sm-like protein
LSm4 [Mus musculus]
Length = 129
Score = 40.3 bits (90), Expect = 0.001
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Frame = +3
Query: 162 IELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREEL-QLETLSIRGNNIRY 314
+ELKNG +G + D MN HL+ V T K+ + ++ IRGN I+Y
Sbjct: 17 VELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKY 68
>At1g76300.1 68414.m08862 small nuclear ribonucleoprotein D3,
putative / snRNP core protein D3, putative / Sm protein
D3, putative similar to SWISS-PROT:P43331 small nuclear
ribonucleoprotein Sm D3 (snRNP core protein D3, Sm-D3)
[Mouse]
Length = 128
Score = 37.9 bits (84), Expect = 0.007
Identities = 19/64 (29%), Positives = 37/64 (57%)
Frame = +3
Query: 123 VRFLMKLSHEXVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSIRGN 302
V+ L + S V++E+K+G + G++ + N L+ + T K+ + QLE + IRG+
Sbjct: 9 VKLLHESSGHIVSVEMKSGELYRGSMIECEDNWNCQLENITYTAKDGKVSQLEHVFIRGS 68
Query: 303 NIRY 314
+R+
Sbjct: 69 LVRF 72
>At1g03330.1 68414.m00312 small nuclear ribonucleoprotein D,
putative / snRNP core SM-like protein, putative / U6
snRNA-associated Sm-like protein, putative similar to
SWISS-PROT:Q9Y333 U6 snRNA-associated Sm-like protein
LSm2 (Small nuclear ribonuclear protein D homolog, G7b,
SnRNP core SM-like protein SM-x5) [Homo sapiens]
Length = 93
Score = 37.1 bits (82), Expect = 0.013
Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
Frame = +3
Query: 114 MKLVRFLMKLSHEXVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNR--EELQLETL 287
M + L + VT+ELKN + GT+ VD +N L+ +V +++ L +
Sbjct: 1 MLFFSYFKDLVGQEVTVELKNDLAIRGTLHSVDQYLNIKLENTRVVDQDKYPHMLSVRNC 60
Query: 288 SIRGNNIRY 314
IRG+ +RY
Sbjct: 61 FIRGSVVRY 69
>At3g59810.1 68416.m06674 small nuclear ribonucleoprotein F,
putative / U6 snRNA-associated Sm-like protein, putative
/ Sm protein F, putative similar to SWISS-PROT:Q9Y4Y8 U6
snRNA-associated Sm-like protein LSm6 [Mus musculus]
Length = 91
Score = 32.3 bits (70), Expect = 0.36
Identities = 17/62 (27%), Positives = 31/62 (50%)
Frame = +3
Query: 129 FLMKLSHEXVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSIRGNNI 308
FL + V ++L +G GT+T +D MN ++ + + + + + IRGNN+
Sbjct: 18 FLKSIRGRPVVVKLNSGVDYRGTLTCLDGYMNIAMEQTEEYVNGQLKNKYGDAFIRGNNV 77
Query: 309 RY 314
Y
Sbjct: 78 LY 79
>At2g43810.1 68415.m05446 small nuclear ribonucleoprotein F,
putative / U6 snRNA-associated Sm-like protein, putative
/ Sm protein F, putative similar to SWISS-PROT:Q9Y4Y8 U6
snRNA-associated Sm-like protein LSm6 [Mus musculus]
Length = 91
Score = 29.1 bits (62), Expect = 3.4
Identities = 15/62 (24%), Positives = 30/62 (48%)
Frame = +3
Query: 129 FLMKLSHEXVTIELKNGSVVHGTITGVDVAMNTHLKAVKVTLKNREELQLETLSIRGNNI 308
FL + + V ++L +G G +T +D MN ++ + + + + +RGNN+
Sbjct: 18 FLKSIRGKPVVVKLNSGVDYRGILTCLDGYMNIAMEQTEEYVNGQLKNTYGDAFVRGNNV 77
Query: 309 RY 314
Y
Sbjct: 78 LY 79
>At3g11964.1 68416.m01479 S1 RNA-binding domain-containing protein
similar to SP|Q05022 rRNA biogenesis protein RRP5
{Saccharomyces cerevisiae}; contains Pfam profile
PF00575: S1 RNA binding domain
Length = 1838
Score = 27.9 bits (59), Expect = 7.8
Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Frame = +3
Query: 141 LSHEXVTIELKNGSVVHGTITGVDVA-MNTHLKAVKVTLKNREEL-QLETLSIRGNNI 308
++ + V + +K+ SVV GTI+ +A + K + L+ EL +L L I GNN+
Sbjct: 587 ITSQAVIVRVKSKSVVKGTISAEHLADHHEQAKLIMSLLRPGYELDKLLVLDIEGNNM 644
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: 12,885,004
Number of Sequences: 28952
Number of extensions: 218728
Number of successful extensions: 403
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 397
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): 403
length of database: 12,070,560
effective HSP length: 79
effective length of database: 9,783,352
effective search space used: 1712086600
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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