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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcggattatttggatactttaaaatgagttgttgggcattttgtttaaccatatcaactttgctaataatattagtattcactgctatttggcctgacagGAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCT

Basic information

species Vitis vinifera
transcript Vv13s0067g01710.t01
intron # 5
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|352777460|gb|FQ474094.1|FQ474094
EST:     AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAG                         GAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAA
genomic: AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAGgtaatgacac ... ggcctgacagGAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAA
EST: gi|45771644|gb|CN007496.1|CN007496
EST:     AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAG                         GAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAA
genomic: AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAGgtaatgacac ... ggcctgacagGAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAA
EST: gi|110417233|gb|EC983272.1|EC983272
EST:     AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAG                         GAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAA
genomic: AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAGgtaatgacac ... ggcctgacagGAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAA
EST: gi|110698113|gb|EE075755.1|EE075755
EST:     AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAG                         GAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAT
genomic: AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAGgtaatgacac ... ggcctgacagGAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAA
EST: gi|30305055|gb|CB981849.1|CB981849
EST:     AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAG                         GAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAA
genomic: AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAGgtaatgacac ... ggcctgacagGAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAA
EST: gi|110401163|gb|EC967762.1|EC967762
EST:     AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAG                         GAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAA
genomic: AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAGgtaatgacac ... ggcctgacagGAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAA
EST: gi|110708703|gb|EE086544.1|EE086544
EST:     AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAG                         GAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAA
genomic: AACTGGTTGCTCCTCCGCTTTATGTTCTTACTACTCAGACGCTTGACAAGgtaatgacac ... ggcctgacagGAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaccatatcaactttgctaataatattagtattcactgctatttggcctgacagGAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCT
               tgctaat  putative branch site (score: 2)
             tttgctaataatatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcggattatttggatactttaaaatgagttgttgggcattttgtttaaccatatcaactttgctaataatattagtattcactgctatttggcctgacagGAGCAAGGAATGTCAATTCTCAATAATGCCATTGCTGCTTGCACAGAAGAAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - aaaatga
- - - - - - - - - - - - - - -tgttggg
- - - - - - - - - - - - - - - - - - - - - - - aaccata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcactgc