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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcaattatgtagtccattttgttatgagagaatcaagctctctacctccagcatgtgtgatttctgttgttgattcccactaaaaaatttctgtctgcagCAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAATCAGTTTGCATTGGGATTATCTGATGGTGGAGTGTGTGTTTTTGAGCCC

Basic information

species Vitis vinifera
transcript Vv09s0002g08370.t01
intron # 24
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|349822443|gb|FQ412707.1|FQ412707
EST:     AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAG                         CAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
genomic: AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAGgtatttactt ... ctgtctgcagCAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
EST: gi|351031457|gb|FQ446660.1|FQ446660
EST:     AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAG                         CAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
genomic: AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAGgtatttactt ... ctgtctgcagCAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
EST: gi|349813140|gb|FQ411380.1|FQ411380
EST:     AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAG                         CAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
genomic: AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAGgtatttactt ... ctgtctgcagCAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
EST: gi|32457830|gb|CD799004.1|CD799004
EST:     GCTACGATGTCGTATTTTAATCCTACTGCTTACCTTCCTGCCAGTGTCAG                         CAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
genomic: GCTACGATGTCGTA--TTAATCCTACTGCTTACCTTCCTGCCAGTGTCAGgtatttactt ... ctgtctgcagCAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
EST: gi|349829095|gb|FQ419627.1|FQ419627
EST:     AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAG                         CAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
genomic: AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAGgtatttactt ... ctgtctgcagCAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
EST: gi|110387196|gb|EC951846.1|EC951846
EST:     AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAG                         CAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
genomic: AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAGgtatttactt ... ctgtctgcagCAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
EST: gi|349826376|gb|FQ417873.1|FQ417873
EST:     AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAG                         CAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
genomic: AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAGgtatttactt ... ctgtctgcagCAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
EST: gi|30321458|gb|CD004720.1|CD004720
EST:     AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAG                         CAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
genomic: AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAGgtatttactt ... ctgtctgcagCAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
EST: gi|329112294|gb|JG391762.1|JG391762
EST:     TAATCCTACTGCTTACCTTCCTGCCAGTGTCAG                         CAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
genomic: TAATCCTACTGCTTACCTTCCTGCCAGTGTCAGgtatttactt ... ctgtctgcagCAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
EST: gi|351048584|gb|FQ448858.1|FQ448858
EST:     AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAG                         CAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA
genomic: AGGCTACGATGTCGTATTAATCCTACTGCTTACCTTCCTGCCAGTGTCAGgtatttactt ... ctgtctgcagCAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctccagcatgtgtgatttctgttgttgattcccactaaaaaatttctgtctgcagCAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAATCAGTTTGCATTGGGATTATCTGATGGTGGAGTGTGTGTTTTTGAGCCC
                                cactaaa  putative branch site (score: 2)
                                          tttctgtct  putative PPT
                                 actaaaaaatttct  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaattatgtagtccattttgttatgagagaatcaagctctctacctccagcatgtgtgatttctgttgttgattcccactaaaaaatttctgtctgcagCAATTCTAATGTACACCCCCTTGTGATTGCGGCACATCCACAAGAGCCAAATCAGTTTGCATTGGGATTATCTGATGGTGGAGTGTGTGTTTTTGAGCCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - -ccatttt
- - - - - - - - - - - - - - -gaatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - -catgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaat