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= Ahg311880
Length=1197
Score E
Sequences producing significant alignments: (Bits) Value
AT2G27600.1 | Symbols: SKD1, VPS4, ATSKD1 | AAA-type ATPase fam... 547 8e-155
AT1G08270.2 | Symbols: | CONTAINS InterPro DOMAIN/s: MIT (Inte... 446 3e-124
> AT2G27600.1 | Symbols: SKD1, VPS4, ATSKD1 | AAA-type ATPase family
protein | chr2:11781038-11783992 FORWARD LENGTH=1758
Length=1758
Score = 547 bits (296), Expect = 8e-155
Identities = 372/409 (91%), Gaps = 4/409 (1%)
Strand=Plus/Plus
Query 403 CGGCCATGGCGAGCTTTTCTGCTCTACGGGCCTCCTGGAACTGGTAAATCGTACTTGGCT 462
||||| ||| ||||||||||| | || |||||||||||||| || |||||||| ||||||
Sbjct 675 CGGCCTTGGAGAGCTTTTCTGTTGTATGGGCCTCCTGGAACAGGAAAATCGTATTTGGCT 734
Query 463 AAGGCTGTTGCTACTGAAGCAGACTCTACGTTTTTCAGTGTGTCTTCATCAGA-CTTGGT 521
||||||||||| |||||||| |||||||| ||||| || |||||||||||||| ||| ||
Sbjct 735 AAGGCTGTTGCCACTGAAGCTGACTCTACCTTTTTTAGCGTGTCTTCATCAGACCTT-GT 793
Query 522 CTCGAAGTGGATGGGTGAAAGTGAAAAGCTAGTATCGAACCTTTTTGAGATGGCTCGTGA 581
|||||||||||||||||||||||| ||||||||||| |||||||| |||||||| |||||
Sbjct 794 CTCGAAGTGGATGGGTGAAAGTGAGAAGCTAGTATCAAACCTTTTCGAGATGGCCCGTGA 853
Query 582 GAGTGCACCGTCAATTATTTTTGTCGATGAGATAGATTCTTTGTGTGGTCA-ACGTGGAG 640
||||| || || ||||||||||| |||||||||||||||||||||||| | ||||||||
Sbjct 854 AAGTGCTCCCTCGATTATTTTTGTTGATGAGATAGATTCTTTGTGTGGT-ACACGTGGAG 912
Query 641 AAGGCAATGAGAGTGAAGCTTCAAGACGTATTAAAACAGAGCTTCTTGTGCAGATGCAGG 700
|||| || ||||||||||||||||||||||| |||||||||||||| |||||||||||||
Sbjct 913 AAGGAAACGAGAGTGAAGCTTCAAGACGTATCAAAACAGAGCTTCTAGTGCAGATGCAGG 972
Query 701 GTGTTGGACACAATGATGAGAAAGTCCTTGTACTGGCAGCAACAAATACACCGTATGCTC 760
||||||||||||||||||||||||| |||||||| |||||||| |||||||| |||||||
Sbjct 973 GTGTTGGACACAATGATGAGAAAGTACTTGTACTTGCAGCAACCAATACACCCTATGCTC 1032
Query 761 TTGATCAGGCTATTCGGCGACGTTTTGATAAGCGTATCTATATCCCTCT 809
||||||||||||| |||||||||||||| |||||||||||||| |||||
Sbjct 1033 TTGATCAGGCTATCCGGCGACGTTTTGACAAGCGTATCTATATTCCTCT 1081
Score = 311 bits (168), Expect = 1e-83
Identities = 243/280 (87%), Gaps = 2/280 (1%)
Strand=Plus/Plus
Query 1 ATGTACAGCAATTTCAAAGAACAAGCGATCGAGTACGTGAAGCAAGCTGTTCAAGAGGAC 60
||||||||||||||||| ||||||||||||||||||||||||||||| ||||| || |||
Sbjct 189 ATGTACAGCAATTTCAAGGAACAAGCGATCGAGTACGTGAAGCAAGCGGTTCATGAAGAC 248
Query 61 AATGCTGGTAACTACAACAAAGCTTTCCCTTTGTACATGAACGCTCTTGAATACTTCAAA 120
|||||||| || ||||| |||||||||||| | ||||||||||| ||||| |||||||||
Sbjct 249 AATGCTGGGAATTACAATAAAGCTTTCCCTCTATACATGAACGCGCTTGAGTACTTCAAA 308
Query 121 ACCCATCTCAAATATGAGAAGAACCCTAAGATCAGAGATA-CTATCAGCGACAAATTCAA 179
|| |||||||| |||||||||||||||||||||||||| | |||| | | | |||||||
Sbjct 309 ACTCATCTCAAGTATGAGAAGAACCCTAAGATCAGAGA-AGCTATTACCCAGAAATTCAC 367
Query 180 CGAGTATATCCTTCGTGCTGAGGAGATTCGTGCGGTTTTAGATGAAGTTCGATCGGGGAC 239
||||||| ||| ||||||||||||||| ||||| ||| | ||||||| | ||||||| |
Sbjct 368 CGAGTATCTCCGTCGTGCTGAGGAGATCCGTGCTGTTCTCGATGAAGGTGGATCGGGTCC 427
Query 240 AGGATCTAATGGCGACGCAGCGGTTGCTACGAAGCCCAAA 279
||||||||| || || ||||| || || |||| |||||||
Sbjct 428 AGGATCTAACGGTGATGCAGCCGTCGCAACGAGGCCCAAA 467
> AT1G08270.2 | Symbols: | CONTAINS InterPro DOMAIN/s: MIT (InterPro:IPR007330);
BEST Arabidopsis thaliana protein match is:
AAA-type ATPase family protein (TAIR:AT2G27600.1); Has 35333
Blast hits to 34131 proteins in 2444 species: Archae - 798;
Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531;
Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
| chr1:2606269-2607507 REVERSE LENGTH=1034
Length=1034
Score = 446 bits (241), Expect = 3e-124
Identities = 331/372 (89%), Gaps = 15/372 (4%)
Strand=Plus/Plus
Query 1 ATGTACAGCAATTTCAAAGAACAAGCGATCGAGTACGTGAAG-CAAGCTGTTCAAGAGGA 59
|||||||| ||||||||||||||||||||||||||||| || ||||| | | |||||||
Sbjct 76 ATGTACAGTAATTTCAAAGAACAAGCGATCGAGTACGT-TAGACAAGC-GGTAAAGAGGA 133
Query 60 CAATGCTGGTAACTACAACAAAGCTTTCCCTTTGTACATGAACGCTCTTGAATACTTCAA 119
||||||||||||||||||||||||||| ||||||||||||||||| ||||||||||||||
Sbjct 134 CAATGCTGGTAACTACAACAAAGCTTTTCCTTTGTACATGAACGCGCTTGAATACTTCAA 193
Query 120 AACCCATCTCAAATATGAGAAGAACCCTAAGATCAGAGATACTATCAGCGACAAATTCAA 179
|| | |||||||||||||||||||||||| |||||||||| | |||| |||||| ||| |
Sbjct 194 AATCTATCTCAAATATGAGAAGAACCCTAGGATCAGAGATGCCATCACCGACAAGTTCTA 253
Query 180 CGAGTATATCCTTCGTGCTGAGGAGATTCGTGCGGTTTTAGATGAAGTTCGATCGGGGAC 239
||||||| ||| |||||||||||| ||||||||||| |||| ||||||| |||||||||
Sbjct 254 CGAGTATCTCCGTCGTGCTGAGGAAATTCGTGCGGTATTAGTTGAAGTTGGATCGGGGAA 313
Query 240 AGGATCTAATGGCGACGCAGCGGTTGCTACGAAGCC-----C-AA----A--GACGGAGG 287
|||||| ||||||||||||||||||||||||||||| | || | ||||||||
Sbjct 314 AGGATCGAATGGCGACGCAGCGGTTGCTACGAAGCCTAAGACTAAGCCCAAAGACGGAGG 373
Query 288 AGATGGAGCAGAATCGAAGCTTCGAGCTGGGTTAAACTCTGCTATTGTTAGGGAAAAGCC 347
|||||||| |||||| |||||||||||||||||||||||||||||| | |||||||||||
Sbjct 374 AGATGGAGAAGAATCAAAGCTTCGAGCTGGGTTAAACTCTGCTATTATAAGGGAAAAGCC 433
Query 348 TAACGTTAAGTG 359
||||||||||||
Sbjct 434 TAACGTTAAGTG 445
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 58784838195
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