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= msgV0239.Seq
(419 letters)
Database: arabidopsis
28,952 sequences; 12,070,560 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
At3g57490.1 68416.m06400 40S ribosomal protein S2 (RPS2D) 40S ri... 90 6e-19
At2g41840.1 68415.m05171 40S ribosomal protein S2 (RPS2C) 90 6e-19
At1g59359.1 68414.m06677 40S ribosomal protein S2 (RPS2B) simila... 88 2e-18
At1g58983.1 68414.m06666 40S ribosomal protein S2, putative simi... 88 2e-18
At1g58684.1 68414.m06657 40S ribosomal protein S2, putative 88 2e-18
At1g58380.1 68414.m06642 40S ribosomal protein S2 (RPS2A) simila... 88 2e-18
At2g33800.1 68415.m04147 ribosomal protein S5 family protein con... 32 0.14
At5g35970.1 68418.m04332 DNA-binding protein, putative similar t... 28 3.0
At2g37930.1 68415.m04656 expressed protein 28 3.0
At3g61590.1 68416.m06898 F-box family protein contains weak hit ... 27 3.9
At5g47430.1 68418.m05844 expressed protein 27 6.8
At5g38386.1 68418.m04638 F-box family protein contains F-box dom... 27 6.8
At4g36690.3 68417.m05206 U2 snRNP auxiliary factor large subunit... 27 6.8
At4g36690.2 68417.m05207 U2 snRNP auxiliary factor large subunit... 27 6.8
At4g36690.1 68417.m05205 U2 snRNP auxiliary factor large subunit... 27 6.8
>At3g57490.1 68416.m06400 40S ribosomal protein S2 (RPS2D) 40S
ribosomal protein S2 - Arabidopsis thaliana,
SWISSPROT:RS2_ARATH
Length = 276
Score = 89.8 bits (213), Expect = 6e-19
Identities = 38/54 (70%), Positives = 47/54 (87%)
Frame = +2
Query: 254 IKEFEIIDFFLGPSLNDEVLKIMPVQKQTRAGQRTRXKAXVAIGDNXGHIGLGV 415
+KE++IID +GPSL DEV+KIMPVQKQTRAGQRTR KA + +GD+ GH+GLGV
Sbjct: 73 VKEYQIIDLLVGPSLKDEVMKIMPVQKQTRAGQRTRFKAFIVVGDSNGHVGLGV 126
Score = 56.4 bits (130), Expect = 7e-09
Identities = 24/34 (70%), Positives = 30/34 (88%)
Frame = +3
Query: 159 DQKEWVPVTKLGRLVREGKIDKLESIYLFSLPSK 260
++++WVPVTKLGRLV+EGKI K+E IYL SLP K
Sbjct: 41 EEEKWVPVTKLGRLVKEGKITKIEQIYLHSLPVK 74
>At2g41840.1 68415.m05171 40S ribosomal protein S2 (RPS2C)
Length = 285
Score = 89.8 bits (213), Expect = 6e-19
Identities = 40/66 (60%), Positives = 50/66 (75%)
Frame = +2
Query: 218 RQTREHLLVFFTIKEFEIIDFFLGPSLNDEVLKIMPVQKQTRAGQRTRXKAXVAIGDNXG 397
+Q + L +KE++IID +GP+L DEV+KIMPVQKQTRAGQRTR KA V +GD G
Sbjct: 70 KQIEQIYLHSLPVKEYQIIDMLIGPTLKDEVMKIMPVQKQTRAGQRTRFKAFVVVGDGNG 129
Query: 398 HIGLGV 415
H+GLGV
Sbjct: 130 HVGLGV 135
Score = 48.8 bits (111), Expect = 1e-06
Identities = 21/34 (61%), Positives = 27/34 (79%)
Frame = +3
Query: 159 DQKEWVPVTKLGRLVREGKIDKLESIYLFSLPSK 260
++++WVPVTKLGRLV G I ++E IYL SLP K
Sbjct: 50 EEEKWVPVTKLGRLVAAGHIKQIEQIYLHSLPVK 83
>At1g59359.1 68414.m06677 40S ribosomal protein S2 (RPS2B) similar
to ribosomal protein S2 GI:430711 from [Drosophila
melanogaster]
Length = 284
Score = 88.2 bits (209), Expect = 2e-18
Identities = 38/54 (70%), Positives = 46/54 (85%)
Frame = +2
Query: 254 IKEFEIIDFFLGPSLNDEVLKIMPVQKQTRAGQRTRXKAXVAIGDNXGHIGLGV 415
+KE++IID +GP+L DEV+KIMPVQKQTRAGQRTR KA V +GD GH+GLGV
Sbjct: 81 VKEYQIIDHLVGPTLKDEVMKIMPVQKQTRAGQRTRFKAFVVVGDGNGHVGLGV 134
Score = 51.6 bits (118), Expect = 2e-07
Identities = 23/34 (67%), Positives = 27/34 (79%)
Frame = +3
Query: 159 DQKEWVPVTKLGRLVREGKIDKLESIYLFSLPSK 260
++ +WVPVTKLGRLV + KI KLE IYL SLP K
Sbjct: 49 EETKWVPVTKLGRLVADNKITKLEQIYLHSLPVK 82
>At1g58983.1 68414.m06666 40S ribosomal protein S2, putative similar
to ribosomal protein S2 GI:939717 from [Urechis caupo]
Length = 284
Score = 88.2 bits (209), Expect = 2e-18
Identities = 38/54 (70%), Positives = 46/54 (85%)
Frame = +2
Query: 254 IKEFEIIDFFLGPSLNDEVLKIMPVQKQTRAGQRTRXKAXVAIGDNXGHIGLGV 415
+KE++IID +GP+L DEV+KIMPVQKQTRAGQRTR KA V +GD GH+GLGV
Sbjct: 81 VKEYQIIDHLVGPTLKDEVMKIMPVQKQTRAGQRTRFKAFVVVGDGNGHVGLGV 134
Score = 51.6 bits (118), Expect = 2e-07
Identities = 23/34 (67%), Positives = 27/34 (79%)
Frame = +3
Query: 159 DQKEWVPVTKLGRLVREGKIDKLESIYLFSLPSK 260
++ +WVPVTKLGRLV + KI KLE IYL SLP K
Sbjct: 49 EETKWVPVTKLGRLVADNKITKLEQIYLHSLPVK 82
>At1g58684.1 68414.m06657 40S ribosomal protein S2, putative
Length = 284
Score = 88.2 bits (209), Expect = 2e-18
Identities = 38/54 (70%), Positives = 46/54 (85%)
Frame = +2
Query: 254 IKEFEIIDFFLGPSLNDEVLKIMPVQKQTRAGQRTRXKAXVAIGDNXGHIGLGV 415
+KE++IID +GP+L DEV+KIMPVQKQTRAGQRTR KA V +GD GH+GLGV
Sbjct: 81 VKEYQIIDHLVGPTLKDEVMKIMPVQKQTRAGQRTRFKAFVVVGDGNGHVGLGV 134
Score = 51.6 bits (118), Expect = 2e-07
Identities = 23/34 (67%), Positives = 27/34 (79%)
Frame = +3
Query: 159 DQKEWVPVTKLGRLVREGKIDKLESIYLFSLPSK 260
++ +WVPVTKLGRLV + KI KLE IYL SLP K
Sbjct: 49 EETKWVPVTKLGRLVADNKITKLEQIYLHSLPVK 82
>At1g58380.1 68414.m06642 40S ribosomal protein S2 (RPS2A) similar
to ribosomal protein S2 GI:939717 from (Urechis caupo)
Length = 284
Score = 88.2 bits (209), Expect = 2e-18
Identities = 38/54 (70%), Positives = 46/54 (85%)
Frame = +2
Query: 254 IKEFEIIDFFLGPSLNDEVLKIMPVQKQTRAGQRTRXKAXVAIGDNXGHIGLGV 415
+KE++IID +GP+L DEV+KIMPVQKQTRAGQRTR KA V +GD GH+GLGV
Sbjct: 81 VKEYQIIDHLVGPTLKDEVMKIMPVQKQTRAGQRTRFKAFVVVGDGNGHVGLGV 134
Score = 51.6 bits (118), Expect = 2e-07
Identities = 23/34 (67%), Positives = 27/34 (79%)
Frame = +3
Query: 159 DQKEWVPVTKLGRLVREGKIDKLESIYLFSLPSK 260
++ +WVPVTKLGRLV + KI KLE IYL SLP K
Sbjct: 49 EETKWVPVTKLGRLVADNKITKLEQIYLHSLPVK 82
>At2g33800.1 68415.m04147 ribosomal protein S5 family protein
contains Pfam profiles PF03719: Ribosomal protein S5,
C-terminal domain, PF00333: Ribosomal protein S5,
N-terminal domain
Length = 303
Score = 32.3 bits (70), Expect = 0.14
Identities = 11/37 (29%), Positives = 24/37 (64%)
Frame = +2
Query: 302 DEVLKIMPVQKQTRAGQRTRXKAXVAIGDNXGHIGLG 412
+ V+++ V K + G++ + +A V +GD G++G+G
Sbjct: 149 ERVVQVRRVTKVVKGGKQLKFRAIVVVGDKQGNVGVG 185
>At5g35970.1 68418.m04332 DNA-binding protein, putative similar to
SWISS-PROT:Q60560 DNA-binding protein SMUBP-2
(Immunoglobulin MU binding protein 2, SMUBP-2)
[Mesocricetus auratus]
Length = 961
Score = 27.9 bits (59), Expect = 3.0
Identities = 14/38 (36%), Positives = 21/38 (55%)
Frame = -3
Query: 348 PARVCFXTGMIFRTSSFRDGPRKKSMISNSLMVKKTSK 235
P R F +G+ +S + PR+KS +S+ L KK K
Sbjct: 43 PTRKVFCSGVNGGSSVTKKKPRRKSNVSDKLRFKKIEK 80
>At2g37930.1 68415.m04656 expressed protein
Length = 467
Score = 27.9 bits (59), Expect = 3.0
Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Frame = +2
Query: 188 TRPSCSRRKNRQTREHLLVFFTI-KEFEIIDFFLGPSLNDEVLKIM 322
TRP +K +R H L+ FT+ K + F +G + N+ + M
Sbjct: 196 TRPPTKEKKQSSSRVHALLQFTLRKGINLFQFVVGDNSNNVLAATM 241
>At3g61590.1 68416.m06898 F-box family protein contains weak hit to
Pfam PF00646: F-box domain; stamina pistilloidia (Stp) -
Pisum sativum, EMBL:AF004843
Length = 411
Score = 27.5 bits (58), Expect = 3.9
Identities = 9/15 (60%), Positives = 13/15 (86%)
Frame = +1
Query: 1 LSEPIVQQWRTLLQP 45
+S PI +QWRTL++P
Sbjct: 150 VSNPITKQWRTLIEP 164
>At5g47430.1 68418.m05844 expressed protein
Length = 879
Score = 26.6 bits (56), Expect = 6.8
Identities = 14/39 (35%), Positives = 16/39 (41%)
Frame = -3
Query: 141 DHGRDHDRVHEDRRGLYLHRVIRIRRENRHVHRLEQRPP 25
+H R DR EDR + H R H HR PP
Sbjct: 718 EHDRTRDRRDEDRSRDHRHHRGETERSQHH-HRKRSEPP 755
>At5g38386.1 68418.m04638 F-box family protein contains F-box domain
Pfam:PF00646
Length = 403
Score = 26.6 bits (56), Expect = 6.8
Identities = 11/36 (30%), Positives = 19/36 (52%)
Frame = -3
Query: 297 RDGPRKKSMISNSLMVKKTSKCSRVCRFFLREQDGR 190
R+ P ++++ +L+ T KC C RE+ GR
Sbjct: 288 RNCPHLETLVLEALLHHVTDKCGDACACVSREEKGR 323
>At4g36690.3 68417.m05206 U2 snRNP auxiliary factor large subunit,
putative similar to U2 snRNP auxiliary factor, large
subunit [Nicotiana plumbaginifolia] GI:3850823
Length = 565
Score = 26.6 bits (56), Expect = 6.8
Identities = 15/36 (41%), Positives = 18/36 (50%)
Frame = -3
Query: 132 RDHDRVHEDRRGLYLHRVIRIRRENRHVHRLEQRPP 25
RDHDR +DR G R R R ++R R R P
Sbjct: 130 RDHDRRRDDRGGRRSRR-SRSRSKDRSERRTRSRSP 164
>At4g36690.2 68417.m05207 U2 snRNP auxiliary factor large subunit,
putative similar to U2 snRNP auxiliary factor, large
subunit [Nicotiana plumbaginifolia] GI:3850823
Length = 542
Score = 26.6 bits (56), Expect = 6.8
Identities = 15/36 (41%), Positives = 18/36 (50%)
Frame = -3
Query: 132 RDHDRVHEDRRGLYLHRVIRIRRENRHVHRLEQRPP 25
RDHDR +DR G R R R ++R R R P
Sbjct: 130 RDHDRRRDDRGGRRSRR-SRSRSKDRSERRTRSRSP 164
>At4g36690.1 68417.m05205 U2 snRNP auxiliary factor large subunit,
putative similar to U2 snRNP auxiliary factor, large
subunit [Nicotiana plumbaginifolia] GI:3850823
Length = 573
Score = 26.6 bits (56), Expect = 6.8
Identities = 15/36 (41%), Positives = 18/36 (50%)
Frame = -3
Query: 132 RDHDRVHEDRRGLYLHRVIRIRRENRHVHRLEQRPP 25
RDHDR +DR G R R R ++R R R P
Sbjct: 130 RDHDRRRDDRGGRRSRR-SRSRSKDRSERRTRSRSP 164
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: 7,827,101
Number of Sequences: 28952
Number of extensions: 134332
Number of successful extensions: 365
Number of sequences better than 10.0: 15
Number of HSP's better than 10.0 without gapping: 349
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): 362
length of database: 12,070,560
effective HSP length: 74
effective length of database: 9,928,112
effective search space used: 645327280
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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