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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacacacttgtagaattgagagtgaatactttctttctccaaactcagaagtgctctaactctaggaaaatattcttactatgctattcatgctttgcagACCCAATTTATGCTTGATCAACTGTCTGATCTTCAAAGAAAG

Basic information

species Vitis vinifera
transcript Vv01s0011g00110.t01
intron # 4
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|27582200|gb|CB004895.1|CB004895
EST:     AGCTTGAGCATCAGCTGGACAAGTCATTGAAGCAAATCAGATCAACAAAG                         ACCCAATTTATGCTTGATCAACTGTCTGATCTTCAAAGAAAG
genomic: AGCTTGAGCATCAGCTGGACAAGTCATTGAAGCAAATCAGATCAACAAAGgtattggagt ... tgctttgcagACCCAATTTATGCTTGATCAACTGTCTGATCTTCAAAGAAAG
EST: gi|110694126|gb|EE070958.1|EE070958
EST:     AGCTTGAGCATCAGCTGGACAAGTCATTGAAGCAAATCAGATCAACAAAG                         ACCCAATTTATGCTTGATCAACTGTCTGATCTTCAAAGAAAG
genomic: AGCTTGAGCATCAGCTGGACAAGTCATTGAAGCAAATCAGATCAACAAAGgtattggagt ... tgctttgcagACCCAATTTATGCTTGATCAACTGTCTGATCTTCAAAGAAAG
EST: gi|45771565|gb|CN007417.1|CN007417
EST:     AGCTTGAGCATCAGCTGGACAAGTCATTGAAGCAAATCAGATCAACAAAG                         ACCCAATTTATGCTTGATCAACTGTCTGATCTTCAAAGAAAG
genomic: AGCTTGAGCATCAGCTGGACAAGTCATTGAAGCAAATCAGATCAACAAAGgtattggagt ... tgctttgcagACCCAATTTATGCTTGATCAACTGTCTGATCTTCAAAGAAAG
EST: gi|110690068|gb|EE066845.1|EE066845
EST:     AGCTTGAGCATCAGCTGGACAAGTCATTGAAGCAAATCAGATCAACAAAG                         ACCCAATTTATGCTTGATCAACTGTCTGATCTTCAAAGAAAG
genomic: AGCTTGAGCATCAGCTGGACAAGTCATTGAAGCAAATCAGATCAACAAAGgtattggagt ... tgctttgcagACCCAATTTATGCTTGATCAACTGTCTGATCTTCAAAGAAAG
EST: gi|45771279|gb|CN007131.1|CN007131
EST:     AGCTTGAGCATCAGCTGGACAAGTCATTGAAGCAAATCAGATCAACAAAG                         ACCCAATTTATGCTTGATCAACTGTCTGATCTTCAAAGAAAG
genomic: AGCTTGAGCATCAGCTGGACAAGTCATTGAAGCAAATCAGATCAACAAAGgtattggagt ... tgctttgcagACCCAATTTATGCTTGATCAACTGTCTGATCTTCAAAGAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagaagtgctctaactctaggaaaatattcttactatgctattcatgctttgcagACCCAATTTATGCTTGATCAACTGTCTGATCTTCAAAGAAAG
                           ttcttac  putative branch site (score: 2)
                     aaaatattcttactat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tacacacttgtagaattgagagtgaatactttctttctccaaactcagaagtgctctaactctaggaaaatattcttactatgctattcatgctttgcagACCCAATTTATGCTTGATCAACTGTCTGATCTTCAAAGAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
tacacac
- - - - - - - - - - - - - - - - - - - ccaaact
- - - - - - - - - - - - - - - - - - - - - - - - - - -ctctaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctattca