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= Ahg887317
Length=483
Score E
Sequences producing significant alignments: (Bits) Value
AT3G53690.1 | Symbols: | RING/U-box superfamily protein | chr3... 499 9e-141
AT2G26455.1 | Symbols: | pseudogene, similar to Ubiquitin conj... 372 2e-102
> AT3G53690.1 | Symbols: | RING/U-box superfamily protein | chr3:19898788-19900065
REVERSE LENGTH=1193
Length=1193
Score = 499 bits (270), Expect = 9e-141
Identities = 355/395 (90%), Gaps = 10/395 (3%)
Strand=Plus/Plus
Query 25 TCTGGTCGGCTAGAGCCAGATAAGTGTCGTCAAATCTTGCC-AAGAGAGGTTTTTGATCA 83
||||||||||| ||||||||| |||||||||| || ||||| || ||||||||||||||
Sbjct 514 TCTGGTCGGCTCGAGCCAGATCAGTGTCGTCAGATTTTGCCTAA-AGAGGTTTTTGATCG 572
Query 84 GTGGGATGATGCTCTT-TCTGAAGCAGTATTGATGCGTTCAAAGAGATTATATTGTCCTT 142
||||| ||||||| || | |||||||||| |||||||||| |||| ||| || |||||||
Sbjct 573 GTGGGGTGATGCT-TTGTGTGAAGCAGTAGTGATGCGTTCGAAGAAATTCTACTGTCCTT 631
Query 143 ATAAGGATTGCTCTGCTTTGCTTTTCATT-GACA-AGAGTGAAGTGAAGATGAAAGATTC 200
| |||||||||||||||||| ||||| || || | |||||||||| ||||||||||||||
Sbjct 632 ACAAGGATTGCTCTGCTTTGGTTTTC-TTAGA-AGAGAGTGAAGTAAAGATGAAAGATTC 689
Query 201 GGAGTGTCCTCATTGCCATAGAATGGTGTGTGTAGAGTGTGGGACTAAGTGGCATCCGGA 260
||||||||||||||| ||||||||||||||||| |||||||||||| |||||||||||||
Sbjct 690 GGAGTGTCCTCATTGTCATAGAATGGTGTGTGTGGAGTGTGGGACTCAGTGGCATCCGGA 749
Query 261 GATAACTTGCGAGGAGTTTCAGAAGCTAGCAGG-GAACGAAAGAGGAAGAGATAATATTT 319
||| |||||||||||||||||||||||||| || |||||| |||||||||||| ||||||
Sbjct 750 GATGACTTGCGAGGAGTTTCAGAAGCTAGC-GGCGAACGAGAGAGGAAGAGATGATATTT 808
Query 320 TGCTCGCGACGATGGCAAAGAAAAAGAACTGGAAAAGATGTTATTCTTGCAAACTCTATA 379
|||| ||||||||||||||| ||||||| |||||||||||| |||||||||| ||||||
Sbjct 809 TGCTTGCGACGATGGCAAAGCAAAAGAAATGGAAAAGATGTCCTTCTTGCAAATTCTATA 868
Query 380 TTGAGAAGTCTCAAGGTTGCTTATACATGAAATGC 414
||||||| ||||| ||||||||||||||||| |||
Sbjct 869 TTGAGAAATCTCAGGGTTGCTTATACATGAAGTGC 903
> AT2G26455.1 | Symbols: | pseudogene, similar to Ubiquitin conjugating
enzyme 7 interacting protein 4 (UbcM4- interacting
protein 4) (RING finger protein 144). (Mouse), contains a Prosite:PS00518:
Zinc finger, C3HC4 type (RING finger), signature
and Pfam:PF01485 IBR domain; blastp match of 25% identity
and 5.7e-18 P-value to SP|Q925F3|U7I4_MOUSE Ubiquitin conjugating
enzyme 7 interacting protein 4 (UbcM4- interacting
protein 4) (RING finger protein 144). (Mouse) {Mus musculus}
| chr2:11253700-11254930 REVERSE LENGTH=1231
Length=1231
Score = 372 bits (201), Expect = 2e-102
Identities = 338/402 (84%), Gaps = 17/402 (4%)
Strand=Plus/Plus
Query 23 GCTCTGGTCGGCTAGAGCCAGATAAGTGTC-GTCAAATCTTGCCAAGAGAGGTTTTTGAT 81
|||| || | ||| ||||| ||||| || | |||||||| |||||||||| || ||||||
Sbjct 611 GCTCGGGGCAGCTCGAGCCCGATAAATG-CGGTCAAATCCTGCCAAGAGAAGTCTTTGAT 669
Query 82 CAGT-GGGATGATGCTCTTT-CTGAAGCAGT-ATTGATGCGTTCAAAGAGATTATATTGT 138
| || |||| || ||||||| | || || || ||| ||| ||||||||||||| ||||||
Sbjct 670 CGGTGGGGA-GACGCTCTTTGC-GAGGCGGTGATT-ATGAGTTCAAAGAGATTCTATTGT 726
Query 139 CCTTATAAGGATTGCTCTGCTTTGCTTTTCATT-GACAAGAGT---GAAGTGAAGATGAA 194
|||||||||||||||||||||||||| ||| || ||| ||||| |||| |||||||||
Sbjct 727 CCTTATAAGGATTGCTCTGCTTTGCTCTTC-TTGGACGAGAGTGAAGAAGAGAAGATGAA 785
Query 195 AGAT-TCGGAGTGTCCTCATTGCCATAGAATGGTGTGTGTAGAGTGTGGGACTAAGTGGC 253
| | |||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct 786 TG-TATCGGAGTGTCCTCATTGCCATAGAATGGTGAGTGTAGAGTGTGGGACTAAGTGGC 844
Query 254 ATCCGGAGATAACTTGCGAGGAGTTTCAGAAGCTAGCAGGGAACGAAAGAGGAAGAGATA 313
||||||||||||| |||||||||||||| |||||||| | ||||||||||| |||||
Sbjct 845 ATCCGGAGATAACATGCGAGGAGTTTCAAAAGCTAGCCGAGAACGAAAGAGAAAGAGGGG 904
Query 314 ATATTTTGCTCGC-GACGATGGCAAAGAAAAAGAACTGGAAAAGATGTTATTCTTGCAAA 372
|||| ||| | | || |||||| ||| ||||| |||| ||||||| ||||||||||
Sbjct 905 ATATATTGTT-GAAGAATATGGCAGAGAGTAAGAAGTGGAGAAGATGTCCTTCTTGCAAA 963
Query 373 CTCTATATTGAGAAGTCTCAAGGTTGCTTATACATGAAATGC 414
|||| ||||| || ||| | ||||||||||||||||| |||
Sbjct 964 TTCTACATTGAAAAATCTGAGGGTTGCTTATACATGAAGTGC 1005
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 23007239326
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