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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgtacatctgcttgttaagcactatctttatcactgttttttgagggctaaatctcagtaacttttttttctgtttcagTTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAAGAATACAAGAAGAGGATTATCTCAGGGAACACAGAAGCAGTTTGCGAGG

Basic information

species Vitis vinifera
transcript Vv08s0007g04230.t01
intron # 8
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|110727350|gb|EE104013.1|EE104013
EST:     ATGATTCAACAGTTTGCAGTGCATGGTATTGGGTGCTCTTCTTACTACAG                         TTTCCTGTAGCAGTTGTAGTGTTTGGTTATGGAGCAGTTAAACTACACAAA
genomic: ATGATTCAACAGTTTGCAGTGCATGGTATTGGGTGCTCTTCTTACTACAGgttttgtaca ... tctgtttcagTTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAA
EST: gi|30137128|gb|CB922466.1|CB922466
EST:     ATGATTCAACAGTTTGCAGTGCATGGTATTGGGTGCTCTTCTTACTACAG                         TTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAA
genomic: ATGATTCAACAGTTTGCAGTGCATGGTATTGGGTGCTCTTCTTACTACAGgttttgtaca ... tctgtttcagTTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAA
EST: gi|110718237|gb|EE094838.1|EE094838
EST:     ATGATTCAACAGTTTGCAGTGCATGGTACTGGGTGCTCTTCTTACTACAG                         TTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAA
genomic: ATGATTCAACAGTTTGCAGTGCATGGTATTGGGTGCTCTTCTTACTACAGgttttgtaca ... tctgtttcagTTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAA
EST: gi|30127341|gb|CB912680.1|CB912680
EST:     ATGATTCAACAGTTTGCAGTGCATGGTATTGGGTGCTCTTCTTACTACAG                         TTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAA
genomic: ATGATTCAACAGTTTGCAGTGCATGGTATTGGGTGCTCTTCTTACTACAGgttttgtaca ... tctgtttcagTTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAA
EST: gi|110720724|gb|EE096897.1|EE096897
EST:     ATGATTCAACAGTTTGCAGTGCATGGTACTGGGTGCTCTTCTTACTACAG                         TTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAA
genomic: ATGATTCAACAGTTTGCAGTGCATGGTATTGGGTGCTCTTCTTACTACAGgttttgtaca ... tctgtttcagTTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAA
EST: gi|30130563|gb|CB915902.1|CB915902
EST:     ATGATTCAACAGTTTGCAGTGCATGGTATTGGGTGCTCTTCTTACTACAG                         TTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAA
genomic: ATGATTCAACAGTTTGCAGTGCATGGTATTGGGTGCTCTTCTTACTACAGgttttgtaca ... tctgtttcagTTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAA
EST: gi|110382176|gb|EC938689.1|EC938689
EST:     CAACAGTTTGCAGTGCATGGTATTGGGTGCTCTTCTTACTACAG                         TTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAA
genomic: CAACAGTTTGCAGTGCATGGTATTGGGTGCTCTTCTTACTACAGgttttgtaca ... tctgtttcagTTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttatcactgttttttgagggctaaatctcagtaacttttttttctgtttcagTTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAAGAATACAAGAAGAGGATTATCTCAGGGAACACAGAAGCAGTTTGCGAGG
                               cagtaac  putative branch site (score: 2)
                                     cttttttttctgtttc  CT-rich tract
                                agtaactttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttgtacatctgcttgttaagcactatctttatcactgttttttgagggctaaatctcagtaacttttttttctgtttcagTTTCCTGTAGCAGTTGTAGTGTTTGGTTATGAAGCAGTTAAACTACACAAAGAATACAAGAAGAGGATTATCTCAGGGAACACAGAAGCAGTTTGCGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC