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= Ahg476783
Length=708
Score E
Sequences producing significant alignments: (Bits) Value
AT1G76300.1 | Symbols: SmD3 | snRNP core protein SMD3 | chr1:28... 1003 0.0
AT1G20580.1 | Symbols: | Small nuclear ribonucleoprotein famil... 390 8e-108
> AT1G76300.1 | Symbols: SmD3 | snRNP core protein SMD3 | chr1:28625884-28627367
FORWARD LENGTH=747
Length=747
Score = 1003 bits (543), Expect = 0.0
Identities = 662/716 (92%), Gaps = 22/716 (3%)
Strand=Plus/Plus
Query 1 AAAAAGGAAAAGGGAAGGTTCAATTAGGGTTTAGTGAAT---CGAAGATGAGTCGGAGTT 57
||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct 27 AAAAAGGAAAAGGGAAGGTTCAATTAGGGTTTAGTGAATCGACGAAGATGAGTCGGAGTT 86
Query 58 TGGGGATTCCGGTGAAGCTTCTTCACGAATCGTCCGGTCATATTGTGTCG-GTGGAGATG 116
||||||||||||||||||||||||||||||||||||||||||| ||| | || ||||||
Sbjct 87 TGGGGATTCCGGTGAAGCTTCTTCACGAATCGTCCGGTCATATCGTG-AGTGTAGAGATG 145
Query 117 AAGAGCGGTGAGCTGTACAGAGGAAGCATGATCGAGTGTGAGGATAATTGGAACTGTCAG 176
|||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct 146 AAGAGCGGTGAGCTTTACAGAGGAAGCATGATCGAGTGTGAGGATAATTGGAACTGTCAG 205
Query 177 CTCGAGAACATCACCTATAAGGCCAAGGATGGTAAGGTATCACAGCTTGAACATGTCTTC 236
||||||||||||||||||| |||||||||||||||||||||||||||||| |||||||||
Sbjct 206 CTCGAGAACATCACCTATACGGCCAAGGATGGTAAGGTATCACAGCTTGAGCATGTCTTC 265
Query 237 ATTCGAGGCAGTTTAGTCAGGTTTATAGTCATACCAGACATGCTAAAGAATGCTCCAATG 296
||||||||||| |||||||||||| ||||||||||||||||| |||||||||||||||||
Sbjct 266 ATTCGAGGCAGCTTAGTCAGGTTTTTAGTCATACCAGACATGTTAAAGAATGCTCCAATG 325
Query 297 TTCAAGGATGTTAGGGGCAAGGGAAAAAGCTCTTCACTAGGTGTAGGCAGAGGAAGAGGC 356
|||||||||||||||||||||||||| ||| |||||||||||||||||||||| |||||
Sbjct 326 TTCAAGGATGTTAGGGGCAAGGGAAAGAGCGCTTCACTAGGTGTAGGCAGAGGTAGAGGT 385
Query 357 GCTGCAATGCGAGCCAAAGGTCAAGGTACTGGACGTGGAACAGGAGGA--A-G-GGGAGC 412
||||||||||||||||||||| | |||| ||||||||||||||| | | ||| ||
Sbjct 386 GCTGCAATGCGAGCCAAAGGT-A-----CTGGGCGTGGAACAGGAGGAGGAAGAGGG-GC 438
Query 413 CGTGCCACCTGTGAGGAGATAGTTTAGTTAACCCTGGTAATGTAGCTTCGACTCTTGAGA 472
|||||||||||||||||||||||||||||||||| |||||||||||||| ||| |||||
Sbjct 439 TGTGCCACCTGTGAGGAGATAGTTTAGTTAACCCTCGTAATGTAGCTTCGGCTCGTGAGA 498
Query 473 CAATCTCTGCAGTATCCATGAGAATCCGCCAACTTCAGCTTGTCACTTATGCATTTAAGG 532
|| |||||||||||||||||||||||||||| |||||||| |||||||||||||||||||
Sbjct 499 CATTCTCTGCAGTATCCATGAGAATCCGCCATCTTCAGCTCGTCACTTATGCATTTAAGG 558
Query 533 TACACAGTAAGTAAAATCTCTAACAAGAAGACAGGGAGGGAAGAGAGAAAGAGGGACCAG 592
||||||| ||||||||||||||| || || |||||||||||||||||||| || ||
Sbjct 559 TACACAGCAAGTAAAATCTCTAA---GA---CATGGAGGGAAGAGAGAAAGAGGAACTAG 612
Query 593 TTCTGTGTTTTGGGTTACTAAGATGTTTGAAACATTGACATGTTTTGTTCACGTGGTCAT 652
|||||||||||||||||||||||||||||||| |||||||||||||||| | ||||||||
Sbjct 613 TTCTGTGTTTTGGGTTACTAAGATGTTTGAAAAATTGACATGTTTTGTTAATGTGGTCAT 672
Query 653 TGAGAGACTTCCCACATTTTATGTAGAACAGAGCACGATTCAAATTTCTATAATGA 708
||||||||||||||||| ||||||| || | |||||||||||||||||||||||||
Sbjct 673 TGAGAGACTTCCCACATCTTATGTATAATATAGCACGATTCAAATTTCTATAATGA 728
> AT1G20580.1 | Symbols: | Small nuclear ribonucleoprotein family
protein | chr1:7128884-7130642 FORWARD LENGTH=762
Length=762
Score = 390 bits (211), Expect = 8e-108
Identities = 523/664 (79%), Gaps = 59/664 (9%)
Strand=Plus/Plus
Query 9 AAAGG-GAAGG--TTCAATTAGGGTTTAGTGA-ATCG-AAGATGAGTCGGAGTTTGGGGA 63
||||| ||||| |||||||||||||| || | | | |||||||| || |||||||| |
Sbjct 56 AAAGGAGAAGGTTTTCAATTAGGGTTTTGT-AGAGAGAAAGATGAGCCGAAGTTTGGGAA 114
Query 64 TTCCGGTGAAGCTTCTTCACGAATCGTCCGGTCATATTGTGTCGGTGGAGATGAAGAGCG 123
| |||||||||||||||||||| | || |||||||| ||| |||||||| | |||||||
Sbjct 115 TACCGGTGAAGCTTCTTCACGAGGCCTCAGGTCATATCGTGACGGTGGAGCTAAAGAGCG 174
Query 124 GTGAGCTGTACAGAGGAAGCATGATCGAGTGTGAGGATAATTGGAACTGTCAGCTCGAGA 183
| ||||| ||||||||||| ||||| |||||||||||||| ||||||||||||||||||
Sbjct 175 GCGAGCTTTACAGAGGAAGTATGATTGAGTGTGAGGATAACTGGAACTGTCAGCTCGAGG 234
Query 184 ACATCACCTATAAGGCCAAGGATGGTAAGGTATCACAGCTTGAACATGTCTTCATTCGAG 243
| || || |||| ||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct 235 ATATTACTTATACCGCCAAGGATGGTAAGGTATCACAGCTTGAGCATGTCTTCATTCGAG 294
Query 244 GCAGTTTAGTCAGGTTTATAGTCATACCAGACATGCT-AAAGAATGCTCCAATGTTCAAG 302
||||| |||||||||||| |||||||||||||| || ||| | ||||||||||||||||
Sbjct 295 GCAGTAAAGTCAGGTTTATGGTCATACCAGACATTCTCAAACA-TGCTCCAATGTTCAAG 353
Query 303 -GAT--G-T--TAGGGGCAAGGGAAAAAGCTCTTCACTAGGTGTAGGCAGAGGAAGAGGC 356
| | | | ||| ||||||||| ||||| ||||| ||||| |||||||| |||||
Sbjct 354 CGGTTAGATGCTAGAATCAAGGGAAAGAGCTCATCACTGGGTGTTGGCAGAGGTAGAGG- 412
Query 357 GCTGCAATGCGAGCCAAA--GG-T-CAAGGTACTGGACGTGGAACAGGAGGAAGGGGAGC 412
||||||||||| ||| || | | || | || |||||||| ||||||||||||||
Sbjct 413 --TGCAATGCGAGGGAAACCGGCTGCCGGGCCCGGG-CGTGGAACTGGAGGAAGGGGAGC 469
Query 413 CGTGCCACCTGTGAGGAGATAGTTT-AGTTAACCCTGGTA-ATGTA-GCTTCGACTCTTG 469
|| |||||||||||||||| | || | || || || | ||||| |||| || ||| |
Sbjct 470 GGTACCACCTGTGAGGAGAT-GATTGATTTTACGCTCA-ACATGTAAGCTTTGATTCTGG 527
Query 470 AGACAATCT--CTGC-AGTATCCATGAGAAT-CCGCCAA-CTTCAGCT-TGTCACTTA-T 522
|| | ||| ||| | |||||| | ||| ||||| ||| | | ||||| ||| |
Sbjct 528 -GATAGTCTTTCTGTGA-TATCCAGGTGAAAGCCGCCTTTCTTG-GTTCTGTCA-TTAAT 583
Query 523 GCATTTA-AGGTACACAGTAAGTAAAATCTCTAACAAGAAGACAGGGAGGGAAGAGAGAA 581
|| |||| || |||| | |||||| | | ||||||| || | || | || |
Sbjct 584 GC-TTTAGAGA-ACAC--T--GTAAAA-C-CAAACAAGA-GA--G--AG--A-GATATCC 627
Query 582 AGAGGGAC--C-AGTTCTGTGTTTTGGGTTACTAAGATGTTTGAAACATTGACATGTTTT 638
||| | || | |||||||| ||||||||||| |||||||||||| |||||||| |||||
Sbjct 628 AGATGCACTACTAGTTCTGTATTTTGGGTTACCAAGATGTTTGAATCATTGACAAGTTTT 687
Query 639 -GTT 641
|||
Sbjct 688 CGTT 691
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 34309922401
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