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= Ahg325507
Length=1578
Score E
Sequences producing significant alignments: (Bits) Value
AT5G09560.1 | Symbols: | RNA-binding KH domain-containing prot... 608 5e-173
> AT5G09560.1 | Symbols: | RNA-binding KH domain-containing protein
| chr5:2967170-2969655 FORWARD LENGTH=1839
Length=1839
Score = 608 bits (329), Expect = 5e-173
Identities = 426/472 (90%), Gaps = 10/472 (2%)
Strand=Plus/Plus
Query 903 AAGTGAGACAGGTGCCTT-TATAACCT-TGGGAAG-TA-ATCGTCTTGACTGTGATGAAG 958
||||| ||||| || ||| ||||| | |||| || || | | || |||||||||||||
Sbjct 990 AAGTGTGACAGATG-CTTCTATAA-GTGTGGG-AGATAGA-CATCCTGACTGTGATGAAC 1045
Query 959 GCTTATTTACAATTACTGCATCAGAG-GACCCTAATGCCAAAAACTCCCCATCCCAGAGA 1017
||||| |||||||||| |||| ||| | || || | || || |||| ||||||||||
Sbjct 1046 GCTTAGTTACAATTACAGCATTTGAGAAAACC-AAAGACATAACCTCCGAATCCCAGAGA 1104
Query 1018 GCTTTAGTTCTTGTTTTCTCTAAAATGTATGAGAATACCACTGCAAAAGTCCTAGACAGT 1077
||||||||||||||||||||||| |||||||||||| ||||||||||||||||||| |||
Sbjct 1105 GCTTTAGTTCTTGTTTTCTCTAACATGTATGAGAATGCCACTGCAAAAGTCCTAGATAGT 1164
Query 1078 GGCTTAACGTCATCTATCACTGCACGGCTTGTGGTCCGCTCAAATCAGATTAATTGTTTG 1137
|||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct 1165 GGCTTAACGTCATCTATCACTGCACGGCTTGTGGTCCGGTCAAATCAGATTAATTGTTTG 1224
Query 1138 ATGGGAGAAGAGGGGCATATAAAATCTACAATACAGCAAAGAACTGGTGCTTTTATAACT 1197
||||||||||||| | ||||||| ||||||| |||||||||||||||||||||||||||
Sbjct 1225 CTGGGAGAAGAGGGTCGTATAAAAACTACAATTCAGCAAAGAACTGGTGCTTTTATAACT 1284
Query 1198 GTATTGAACGTTGAGCAGAACCCAAAATGTGTTTCAGAGAACAATCAAATTGTGCAGATT 1257
|||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct 1285 GTATTGAACGTTGAGCAGAACCCAAAATGTGTTTCAGAGAACAATCAAGTTGTGCAGATT 1344
Query 1258 TCAGGAGCGTTCCCAAATGTGAAAGAAGCTATAAACCAAGTTACCAGTATGCTACGAGAG 1317
||||||| |||||||||||||| |||||||||||||||||||||||| ||||||||||||
Sbjct 1345 TCAGGAGAGTTCCCAAATGTGAGAGAAGCTATAAACCAAGTTACCAGCATGCTACGAGAG 1404
Query 1318 GATCTTATCAACCAATCCTTCCAAATGGGGTCTCATTTTCCAGTTAACTATT 1369
||||||||||||||||| ||||||| ||||||||| | | ||||||||||||
Sbjct 1405 GATCTTATCAACCAATCGTTCCAAAGGGGGTCTCAATATGCAGTTAACTATT 1456
Score = 455 bits (246), Expect = 6e-127
Identities = 475/580 (82%), Gaps = 37/580 (6%)
Strand=Plus/Plus
Query 66 ATACGT-ACTGTTTCGCATTCTCGGCCACGTGTCTCAGG-TGGGCGATGTGATCGGAAAA 123
|||||| || ||||||||||||| || |||||||||||| |||| |||||||||| |||
Sbjct 84 ATACGTAAC-GTTTCGCATTCTCTGCAACGTGTCTCAGGCCGGGC-ATGTGATCGGGAAA 141
Query 124 GATGGAAGAGTGATTAGGCAGCTT-AAAGAATCAAC-GAATTCCCA-AATCTGGGTCGAG 180
||||| || || ||| | ||||| | | ||||||| ||| | ||| ||||||||||||
Sbjct 142 CATGGAGGAATGGTTAAGAAGCTTCATA-AATCAACAGAA-T-CCAGTATCTGGGTCGAG 198
Query 181 AAGGCTCCTC-T--TGATTCTCTGTACCGTGTCATCACGATAATCGCTGATGTAGGCTCG 237
||| |||||| | |||||||| ||||||| |||||| ||| ||| | ||||||| ||
Sbjct 199 AAGACTCCTCTTGATGATTCTCCGTACCGTATCATCAAGATTTTCGGTCATGTAGGTTC- 257
Query 238 A-CGTCTAGGGTAAAATTAGGTGTTATTGTTAATAATGCTAGCAACAGGAAGAAGGAGGA 296
| ||||||||| ||||||||||||||||||||||| | |||||||||| |||| || |
Sbjct 258 AGTGTCTAGGGTGAAATTAGGTGTTATTGTTAATAACGTTAGCAACAGGGAGAA-GA--A 314
Query 297 GGTGCAAGAACAAGAAGTTGAAGTCTCCAGAGCACAAGGA-GCGTTGATTAGGGTTTTCG 355
|| |||||||||||||||||||||||||||||||||| | |||||||||||||||||||
Sbjct 315 GGAGCAAGAACAAGAAGTTGAAGTCTCCAGAGCACAAT-ACGCGTTGATTAGGGTTTTCG 373
Query 356 AAGCTCTAAATGTC--AGATTTGGGACTAGTAGTACCGTCTCGTCTAGGCTGTTAATGGA 413
||||||||||| || ||||| | ||||||||||||||||| | || ||||| |||||
Sbjct 374 AAGCTCTAAATTTCGGAGATT-GC-ACTAGTAGTACCGTCTCCTGTAATCTGTTGATGGA 431
Query 414 AGCTTGCCATGTGGTTACTGTCATAGGTAAGGGA-GGTGAATTGATGGAGATGATAA-GG 471
|| |||||||||||||||| ||||||||| | |||||||||||| ||| |||| ||
Sbjct 432 AGGGAGCCATGTGGTTACTGTGATAGGTAAGA-ATGGTGAATTGATGCAGAGGATATTGG 490
Query 472 AAGGAAACTGGTTGTAATGTTGAAATATGC-CAATATAATTTACCAAGTTGCGCAGATCC 530
||| ||||||||||||||||| || || | || || |||| ||| |||| || | ||
Sbjct 491 AAG-AAACTGGTTGTAATGTTCAACTACGTTCAC-ATGATTTGTCAATTTGCACAAACCC 548
Query 531 TGATGACGT-GATGGTGAAGATAGAAGGAAAC-GT-TTT-TGCAGTGAAGAAAGTTCTAG 586
|| |||||| | || | ||||| |||||||| | ||| |||||||| ||| | ||||
Sbjct 549 TGGTGACGTAG-TGCTCAAGATCGAAGGAAATAGACTTTCTGCAGTGATGAAGGCACTAG 607
Query 587 TATCCATATCCAGTCGTCT-GCAAGCTTGTCAGTCGATTT 625
|||||||||||||||| || ||| ||||||| | ||||||
Sbjct 608 TATCCATATCCAGTCG-CTTGCAGGCTTGTCCGCCGATTT 646
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 77911245840
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