BLASTN 2.2.26+
Reference:
Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb Miller (2000),
"A greedy algorithm for aligning DNA sequences", J Comput Biol 2000;
7(1-2):203-14.
Database: TAIR10_cdna_20110103_representative_gene_model_updated
33,602 sequences; 51,074,197 total letters
Query= Ahg952207
Length=548
Score E
Sequences producing significant alignments: (Bits) Value
AT2G42510.2 | Symbols: | FUNCTIONS IN: molecular_function unkn... 425 2e-118
AT1G54380.1 | Symbols: | spliceosome protein-related | chr1:20... 340 6e-93
> AT2G42510.2 | Symbols: | FUNCTIONS IN: molecular_function unknown;
INVOLVED IN: spliceosome assembly, nuclear mRNA splicing,
via spliceosome; LOCATED IN: cellular_component unknown;
CONTAINS InterPro DOMAIN/s: Survival motor neuron interacting
protein 1 (InterPro:IPR007022); BEST Arabidopsis thaliana
protein match is: spliceosome protein-related (TAIR:AT1G54380.1);
Has 297 Blast hits to 270 proteins in 80 species: Archae
- 2; Bacteria - 35; Metazoa - 62; Fungi - 11; Plants -
64; Viruses - 0; Other Eukaryotes - 123 (source: NCBI BLink).
| chr2:17701662-17704618 FORWARD LENGTH=1986
Length=1986
Score = 425 bits (230), Expect = 2e-118
Identities = 295/323 (91%), Gaps = 17/323 (5%)
Strand=Plus/Plus
Query 44 AAGACTATGTTGTAAAAGCGAAGAACACTGAAGATAATGACGATTACAATAGCATTTTGA 103
|||||||||||||||||| | |||| ||||||||||||||||||||||||||||||||||
Sbjct 1313 AAGACTATGTTGTAAAAGAGGAGAAAACTGAAGATAATGACGATTACAATAGCATTTTGA 1372
Query 104 GGCCTGCGTTTGCCGTGGATGGAGAACCTGATTTCGATTCTGGACCACCAGAAGATGGGA 163
||||||||||||| ||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct 1373 GGCCTGCGTTTGCTGTGGATGGAGAACCTGATTTCGATTCTGGACCACCAGAAGACGGGA 1432
Query 164 TTGAATATTTAAGACGAGTCAGGTGGGAGGCTAAGCGAATTCCAAAAGTAAAAGTAGCCA 223
|||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct 1433 TTGAATATTTAAGACGAGTCAGGTGGGAGGCTAAGCGAATTCCAAATGTAAAAGTAGCCA 1492
Query 224 AGGTAAATGGAAGCAAGTACAGAGAGAAAGAGCAAAGTGTTTACATGCCACAAATTTCTG 283
|||||| ||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct 1493 AGGTAAGTGGAAGCAAGTACAGAGAGAAAGAGCAAAGTGTTTACATGCCACAAATT-C-- 1549
Query 284 AAATCCCCAAATGCCCAGAGCACCTGCTGCCGGTGAAGGAATGGGAGGAGTCGTTGCTTT 343
|| | | || ||||||| |||||||||||||||||||| ||||||||||
Sbjct 1550 ----CC--A---G---AG--CACCTGCAACCGGTGAAGGAATGGGAGGACTCGTTGCTTT 1595
Query 344 CCGACTTCTCACACATTCGGCTG 366
||||||||||||||||||| |||
Sbjct 1596 CCGACTTCTCACACATTCGTCTG 1618
Score = 250 bits (135), Expect = 1e-65
Identities = 152/160 (95%), Gaps = 1/160 (1%)
Strand=Plus/Plus
Query 366 GATACAAGGAATGGACTCAGTGACGCGGGTCTCAAAGCTGAGAAAGCGGATATGTTTGGT 425
|||||||||||||||||||||||| ||||| |||||||||||||||||||||||||||||
Sbjct 1672 GATACAAGGAATGGACTCAGTGACACGGGTATCAAAGCTGAGAAAGCGGATATGTTTGGT 1731
Query 426 TGAGAAGGAGAGCGGTTTAGAGAGTAGTGACTGCAAATGGGTAGTAGCATTATGTGCATC 485
|| ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct 1732 -GAAAAGGAGAGCGGTTTAGAGAGTAGCGACTGCAAATGGGTAGTAGCATTATGTGCATC 1790
Query 486 AGTGGACACTCCTTTGGATGCTGATACTTGTGCTTGTCTC 525
||||||||||||| ||||||||||||| |||||||||||
Sbjct 1791 AGTGGACACTCCTCCGGATGCTGATACTAGTGCTTGTCTC 1830
> AT1G54380.1 | Symbols: | spliceosome protein-related | chr1:20297965-20300908
REVERSE LENGTH=1879
Length=1879
Score = 340 bits (184), Expect = 6e-93
Identities = 251/284 (88%), Gaps = 2/284 (1%)
Strand=Plus/Plus
Query 68 ACACTGAAGATAATGACGATTACAATAGCATTTTGAGGCCTGCGTTTGCCGTGGATGGAG 127
||||||| |||||||| |||||||||||||||||||| |||||||||| || |||||||
Sbjct 833 ACACTGACGATAATGATGATTACAATAGCATTTTGAGACCTGCGTTTGAAGTAGATGGAG 892
Query 128 AACCTGA-TTTCGATTCTGGACCACCAGAAGATGGGATTGAATATTTAAGACGAGTCAGG 186
||||||| ||| | | |||||||||||||||||||| |||||||||||||||||||||||
Sbjct 893 AACCTGATTTTAG-TACTGGACCACCAGAAGATGGGCTTGAATATTTAAGACGAGTCAGG 951
Query 187 TGGGAGGCTAAGCGAATTCCAAAAGTAAAAGTAGCCAAGGTAAATGGAAGCAAGTACAGA 246
|||||||||||| ||||||| || |||| |||||||||| || ||| ||||| ||||| |
Sbjct 952 TGGGAGGCTAAGGGAATTCCGAATGTAAGAGTAGCCAAGATAGATGAAAGCACGTACATA 1011
Query 247 GAGAAAGAGCAAAGTGTTTACATGCCACAAATTTCTGAAATCCCCAAATGCCCAGAGCAC 306
||||||||||||||||||| ||||||| |||| |||||||||||||||| |||||| ||
Sbjct 1012 AAGAAAGAGCAAAGTGTTTATATGCCACTAATTCCTGAAATCCCCAAATGTCCAGAGTAC 1071
Query 307 CTGCTGCCGGTGAAGGAATGGGAGGAGTCGTTGCTTTCCGACTT 350
||| | || |||||||||||||||| |||||||||| |||||
Sbjct 1072 CTGTTACCCATGAAGGAATGGGAGGACTCGTTGCTTTTGGACTT 1115
Score = 226 bits (122), Expect = 2e-58
Identities = 146/158 (92%), Gaps = 0/158 (0%)
Strand=Plus/Plus
Query 367 ATACAAGGAATGGACTCAGTGACGCGGGTCTCAAAGCTGAGAAAGCGGATATGTTTGGTT 426
||||||||||||||||| ||||||||||| |||||||||| |||||| ||||||||||||
Sbjct 1267 ATACAAGGAATGGACTCGGTGACGCGGGTATCAAAGCTGAAAAAGCGTATATGTTTGGTT 1326
Query 427 GAGAAGGAGAGCGGTTTAGAGAGTAGTGACTGCAAATGGGTAGTAGCATTATGTGCATCA 486
|||||||||||||||||| ||||||| || ||||||||||||||||| || |||||||||
Sbjct 1327 GAGAAGGAGAGCGGTTTACAGAGTAGCGATTGCAAATGGGTAGTAGCGTTGTGTGCATCA 1386
Query 487 GTGGACACTCCTTTGGATGCTGATACTTGTGCTTGTCT 524
|||| |||||||||||||| |||||||||||||||||
Sbjct 1387 TTGGAGACTCCTTTGGATGCCGATACTTGTGCTTGTCT 1424
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 26272458881
Database: TAIR10_cdna_20110103_representative_gene_model_updated
Posted date: Sep 25, 2014 6:13 PM
Number of letters in database: 51,074,197
Number of sequences in database: 33,602
Matrix: blastn matrix 1 -2
Gap Penalties: Existence: 0, Extension: 2.5