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= Ahg914231
Length=1743
Score E
Sequences producing significant alignments: (Bits) Value
AT1G50500.2 | Symbols: HIT1 | Membrane trafficking VPS53 family... 604 7e-172
AT1G50970.1 | Symbols: | Membrane trafficking VPS53 family pro... 124 2e-27
> AT1G50500.2 | Symbols: HIT1 | Membrane trafficking VPS53 family
protein | chr1:18707990-18715935 REVERSE LENGTH=2907
Length=2907
Score = 604 bits (327), Expect = 7e-172
Identities = 512/600 (85%), Gaps = 17/600 (3%)
Strand=Plus/Plus
Query 977 AGGTCTCGGGGATAGATGAAAGGTTGATATGTTACATAGTTAATTCTGCTGAGTATTGCC 1036
||||||||| || |||||||||| ||||||| ||||||||||||||||||||||||||||
Sbjct 1698 AGGTCTCGGAGAGAGATGAAAGGGTGATATGCTACATAGTTAATTCTGCTGAGTATTGCC 1757
Query 1037 GCAAAACATCTGGTGATTTGGCAGAAGAA-GTCTC-GACAATTATTGACCCGCTTTATGC 1094
||||||||||||||| |||||||| || ||||| || |||||||||||| | ||||||
Sbjct 1758 ACAAAACATCTGGTGAACTGGCAGAA-AACGTCTCAGA-AATTATTGACCCACATTATGC 1815
Query 1095 AGACGGTGTAGACATGTCAGAGGTCCAGGATAAATTATCGTG-CGTCATAACGAAGGCAT 1153
|| ||||||||||||||||||||||||||| |||| || | |||||||||||| ||||
Sbjct 1816 TGATGGTGTAGACATGTCAGAGGTCCAGGATGAATTTTC-AGCCGTCATAACGAAAGCAT 1874
Query 1154 TGATGACACTAGTCCGTGGACTGGAAACTAAATTTGACACAGAAAT-GCAAGAGATGGCA 1212
|| | || || |||| |||||| || |||||||||||||||||||| || || |||| ||
Sbjct 1875 TGGTAACGCTGGTCCTTGGACTTGAGACTAAATTTGACACAGAAATGGC-AGTGATGACA 1933
Query 1213 TGTGTTTCATGGGGCACACTTGAGAGTGTTGGTGACCATTCTCAGTACGTAAATGGAATA 1272
||||| ||||| ||||||||||||||||||||||||| ||| |||||| |||||||||
Sbjct 1934 CGTGTTCCATGGAGCACACTTGAGAGTGTTGGTGACCAGTCTGGGTACGTGAATGGAATA 1993
Query 1273 TATACAATCCTTAACAACAGTTTTCCTGTCCTTGGGAAACTTCTAGCACCAGTCTACTTC 1332
||||| |||||| | ||| | |||||||| |||||||||||| ||||||| ||||||
Sbjct 1994 AATACAGTCCTTAGCGGCAGCATACCTGTCCTCGGGAAACTTCTAACACCAGTTTACTTC 2053
Query 1333 CAATTCTTCCTGGAAAAGTTGGCATCATCCCTTGGACTACGGTTCTATGCTAATATTTTC 1392
|| || ||||| || ||| ||||||||||||| |||| ||||||||||||||||||||||
Sbjct 2054 CAGTTTTTCCTTGACAAGCTGGCATCATCCCTAGGACCACGGTTCTATGCTAATATTTTC 2113
Query 1393 AGATGCAAGAAAATATCAGAAACTGGAGCTCAGCAGATGTTGCTAGATACGCAAGCAATG 1452
||||||||| || |||| |||||||||||||| |||||||| |||||||||||||| ||
Sbjct 2114 AGATGCAAGCAACTATCCGAAACTGGAGCTCAACAGATGTTACTAGATACGCAAGCTGTG 2173
Query 1453 GAGAT-GATTCTTTTA-AAAGTTCCATCTCTTGACAGACAGACCGT-AAGTGCTGCGAGC 1509
|| | |||||| || ||| |||| || |||| |||||||||| | || |||||| |||
Sbjct 2174 AAG-TCGATTCTACTAGAAA-TTCCTTCCCTTGCCAGACAGACC-TCAACTGCTGCCAGC 2230
Query 1510 TATTCGGAATTCGTGAAGC-GTCAAATGAGCAGAGCTGAAGCAGTCCTAAAGGGTCTTAC 1568
||||| |||| |||| || || |||||||||||||||||||| |||| |||| || |||
Sbjct 2231 TATTCCAAATTTGTGA-GCCGTGAAATGAGCAGAGCTGAAGCACTCCTTAAGG-TCATAC 2288
Score = 508 bits (275), Expect = 5e-143
Identities = 529/645 (82%), Gaps = 44/645 (7%)
Strand=Plus/Plus
Query 4 GTAAACCAATTAGTG-AATCA-TTTCAAAAGGA-ATTGGGATGTTCCTAGCATAACGGAT 60
||||||||||| ||| || || ||| ||| | | |||||||||||| || |||||
Sbjct 620 GTAAACCAATT-GTGTAACCACTTT--GAAGCATACAGGGATGTTCCTAAAATCACGGA- 675
Query 61 G-TCAGAGTA-AAGCTTGAGAATATAAAGCAAATTCTTAAGTCTCATGTATTTTCTGATT 118
| |||||| | |||||| | |||||||||||||| |||||||| ||||||||||||||||
Sbjct 676 GCTCAGAG-AGAAGCTTAATAATATAAAGCAAATCCTTAAGTCCCATGTATTTTCTGATT 734
Query 119 TTTCCAGTCTAGCTACTGGGAAAGAGACAGAGGAAATGTCTTTACTAAAGAAGTTATCTG 178
|||||||| ||| ||||||||||||||||||||||| ||| ||| ||||||||||||
Sbjct 735 TTTCCAGTTTAGGTACTGGGAAAGAGACAGAGGAAACAAATTTGCTACAGAAGTTATCTG 794
Query 179 ATGCTTGCTTGGTTGTCGATGCGT-TGGAGCCATCTGTGAGGGAAGAGTTGGTAAACAAC 237
|| ||||||||||||| ||||| | |||| |||||||||||||||||||||||||| |||
Sbjct 795 ATTCTTGCTTGGTTGTTGATGC-TCTGGAACCATCTGTGAGGGAAGAGTTGGTAAATAAC 853
Query 238 TTTTGCAGCACGGATCTAAGCTCATATGAACAAAAAATT-ATAGAAGCTGAATTGACAAA 296
|||||||||| ||| || | |||||||||||||| || | || |||||||||| ||||
Sbjct 854 TTTTGCAGCAGGGAGCTCACCTCATATGAACAAATTTTTGA-AGGAGCTGAATTGGCAAA 912
Query 297 TTTGGATGAA-ATACAGCGGATATACAATCAGATACATTGTC-ATATCCGAACAAATCAA 354
|||||| || | | |||||| ||| | |||| | ||| | |||||||||||| ||
Sbjct 913 GTTGGAT-AAGACAGAGCGGAGATATGCTTGGATAAAGCGTCGA-ATCCGAACAAATGAA 970
Query 355 GAAATCTGGAAGATTTTTCCTGCTT-TGTGGCATGTGCCTTAT-GGACTGTGCA-TCAAG 411
||||| ||||||||||||||||||| | ||||||||||| ||| || || |||| || ||
Sbjct 971 GAAATTTGGAAGATTTTTCCTGCTTCT-TGGCATGTGCCGTATAGG-CTATGCATTC-AG 1027
Query 412 ATCTGCAAG-ATAACAAGG-GGCCAAGTAGAATCTATTCTGGTCAACATGAAAG-GAAAG 468
|||||||| | ||||||| | ||||||||||||||||||||||||||||||| ||| |
Sbjct 1028 TTCTGCAAGCA-AACAAGGAAG-CAAGTAGAATCTATTCTGGTCAACATGAAAGAGAA-G 1084
Query 469 CCAGCTGCTGTAGCGAGATTGCTTCAGGAACTGGAAAGGAC-GCTAAAGTTTGAACTGGA 527
|||| | |||||||| |||||||| || ||| |||| || | | |||||||| ||
Sbjct 1085 CCAG-T--TGTAGCGATATTGCTTCTGGCACTACAAAGTACAG-TGGAGTTTGAAAAAGA 1140
Query 528 ACTTGAAATGAAATTTGGTGGTG-T-T-CCTACTAA-GCATATTGGAGATGACATTGAGG 583
|||||||| |||||||||||||| | | |||||||| | |||||| |||||||||||| |
Sbjct 1141 ACTTGAAAAGAAATTTGGTGGTGGTGTTCCTACTAAAG-ATATTGAAGATGACATTGAAG 1199
Query 584 AAACTGTTGACG-GGGAAAGTTA-TAGTCGGAATGTATCCGAAAT 626
||| || | || ||||| | || ||||| |||| ||||| ||||
Sbjct 1200 AAATTGGT-ACATGGGAA-GATAATAGTCAGAATATATCCAAAAT 1242
Score = 100 bits (54), Expect = 4e-20
Identities = 68/74 (92%), Gaps = 4/74 (5%)
Strand=Plus/Plus
Query 821 AGGTCTTTCAACGAGTTCTACAAG-CCTATGCTACAAAGCTATTTTTTAAGCTCTCCAAA 879
||||||||||||||||| || ||| ||||||||||||||||||||||||||||| |||||
Sbjct 1590 AGGTCTTTCAACGAGTTTTA-AAGGCCTATGCTACAAAGCTATTTTTTAAGCTC-CCAAA 1647
Query 880 -GGAGGCACTCGTA 892
||||||||| |||
Sbjct 1648 AGGAGGCACTGGTA 1661
> AT1G50970.1 | Symbols: | Membrane trafficking VPS53 family protein
| chr1:18896323-18900268 FORWARD LENGTH=1710
Length=1710
Score = 124 bits (67), Expect = 2e-27
Identities = 114/134 (85%), Gaps = 13/134 (10%)
Strand=Plus/Plus
Query 667 TTTAACTTCCGTGGAATTATCTCTTCTTGCTTCGAGCCTCATTTAACCAAATATATTGAG 726
||||||||||||||||| || |||||||||||||||||||||||||||| ||||||||||
Sbjct 1024 TTTAACTTCCGTGGAATGATATCTTCTTGCTTCGAGCCTCATTTAACCATATATATTGAG 1083
Query 727 --G-A-G-GA---A-CTAATGCAA-TGCCTGGA-AAGAGTTGTTCAGGAGGAAACATGGG 775
| | | || | || |||||| | |||||| || |||||| ||||||||||||||||
Sbjct 1084 AAGGAAGAGATGGAACTTATGCAACT-CCTGGAGAA-AGTTGTGCAGGAGGAAACATGGG 1141
Query 776 ATACTGATGAGGAA 789
||| ||| ||||||
Sbjct 1142 ATATTGAGGAGGAA 1155
Score = 84.2 bits (45), Expect = 4e-15
Identities = 58/64 (91%), Gaps = 2/64 (3%)
Strand=Plus/Plus
Query 1429 ATGTTGCTAGATACGCAAGCA-ATGGAGATGATTCTTTTAAAAGTTCCATCTCTTGACAG 1487
|||||||||||| |||| | | ||| |||||||||||||||||||||||||||||| |||
Sbjct 1189 ATGTTGCTAGATGCGCATG-ATATGAAGATGATTCTTTTAAAAGTTCCATCTCTTGCCAG 1247
Query 1488 ACAG 1491
||||
Sbjct 1248 ACAG 1251
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 86194335765
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