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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttaatgtatagattctgcttgattttgatcatggccgtgttaaaatgcttttctgattgtattcgatcttactttttgatctgttcggtgtttccagGGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGGGTGTTTTTGGTGCCATCATTTTCCTCTTTCTCGGTTCAGTTAAGGGCTT

Basic information

species Vitis vinifera
transcript Vv14s0060g01280.t01
intron # 1
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|110694422|gb|EE071513.1|EE071513
EST:     TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTG                         GGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTANCATCTTCATGG
genomic: TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTGgtgagctctc ... gtgtttccagGGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
EST: gi|110405069|gb|EC970600.1|EC970600
EST:     TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTG                         GGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
genomic: TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTGgtgagctctc ... gtgtttccagGGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
EST: gi|30305231|gb|CB982025.1|CB982025
EST:     TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTG                         GGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
genomic: TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTGgtgagctctc ... gtgtttccagGGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
EST: gi|30304215|gb|CB981009.1|CB981009
EST:     TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTG                         GGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
genomic: TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTGgtgagctctc ... gtgtttccagGGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
EST: gi|110698962|gb|EE077060.1|EE077060
EST:     TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTG                         GGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
genomic: TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTGgtgagctctc ... gtgtttccagGGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
EST: gi|110698262|gb|EE075597.1|EE075597
EST:     TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTG                         GGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
genomic: TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTGgtgagctctc ... gtgtttccagGGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
EST: gi|30304144|gb|CB980938.1|CB980938
EST:     TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTG                         GGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
genomic: TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTGgtgagctctc ... gtgtttccagGGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
EST: gi|110712927|gb|EE088411.1|EE088411
EST:     TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTG                         GGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
genomic: TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTGgtgagctctc ... gtgtttccagGGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
EST: gi|352781563|gb|FQ468407.1|FQ468407
EST:     TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTG                         GGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG
genomic: TGAGGATGTTGCTGCTAAGTGTGCTGAGATTCAGAATGCCATCTCTGTTGgtgagctctc ... gtgtttccagGGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatgcttttctgattgtattcgatcttactttttgatctgttcggtgtttccagGGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGGGTGTTTTTGGTGCCATCATTTTCCTCTTTCTCGGTTCAGTTAAGGGCTT
                                              tgtttcc  CT-rich tract
                          ttacttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttttaatgtatagattctgcttgattttgatcatggccgtgttaaaatgcttttctgattgtattcgatcttactttttgatctgttcggtgtttccagGGGCAACCTCATTTCTGTTTACCGAGTATAGGTACCTTAGCATCTTCATGGGTGTTTTTGGTGCCATCATTTTCCTCTTTCTCGGTTCAGTTAAGGGCTT

- - - - - - - - - tgcttga
- - - - - - - - - - - - - - - -tcatggc
- - - - - - - - - - - - - - - - - - - - - -taaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgattg