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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atagtgggtttcctctttttgatgagaattgcagatatttatataatgaaattgattcattctctaaaccctgtagtttttctactcgtattctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATCCTTTCTTCTCCTCCTGATCCATCTCCTATGAGGACAATGGCCGGGGGCA

Basic information

species Vitis vinifera
transcript Vv18s0001g12750.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|161712186|gb|FC061558.1|FC061558
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|30125650|gb|CB910989.1|CB910989
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|161708079|gb|FC056483.1|FC056483
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|161714080|gb|FC064381.1|FC064381
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|161716110|gb|FC069483.1|FC069483
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|161710483|gb|FC060670.1|FC060670
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|110718647|gb|EE095720.1|EE095720
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|161707362|gb|FC055179.1|FC055179
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|161714866|gb|FC063017.1|FC063017
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|161711653|gb|FC059542.1|FC059542
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|71859911|gb|DT008966.1|DT008966
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|110701299|gb|EE078705.1|EE078705
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|110684947|gb|EE062806.1|EE062806
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|110699416|gb|EE076394.1|EE076394
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|294966810|gb|GW837829.1|GW837829
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|161708249|gb|FC057005.1|FC057005
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|161709836|gb|FC058909.1|FC058909
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|110718530|gb|EE095467.1|EE095467
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|161717418|gb|FC067550.1|FC067550
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|37188269|gb|CF607618.1|CF607618
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|110719756|gb|EE095160.1|EE095160
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|110710884|gb|EE087453.1|EE087453
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|161709889|gb|FC060207.1|FC060207
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|161705914|gb|FC055376.1|FC055376
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|30126585|gb|CB911924.1|CB911924
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|110720579|gb|EE096626.1|EE096626
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|71868003|gb|DT017058.1|DT017058
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGCGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|352774042|gb|FQ474565.1|FQ474565
EST:     ATTCCTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
EST: gi|110698651|gb|EE076389.1|EE076389
EST:     ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCG                         GTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC
genomic: ATTCGTCTTTGCTGGCTCAAATCCCCGGCGAGCGTGGTGGCTCGATTGCGgtccgcactc ... ttctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaaattgattcattctctaaaccctgtagtttttctactcgtattctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATCCTTTCTTCTCCTCCTGATCCATCTCCTATGAGGACAATGGCCGGGGGCA
                ctctaaa  putative branch site (score: 3)
                            tagttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atagtgggtttcctctttttgatgagaattgcagatatttatataatgaaattgattcattctctaaaccctgtagtttttctactcgtattctgattagGTTGCAATTGAAGACCTGGAGCATATCTTAAATGAGGTGAAGACCCACATCCTTTCTTCTCCTCCTGATCCATCTCCTATGAGGACAATGGCCGGGGGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- -gtgggtt
- - - - - - - - - - gatgagaa
- - - - - - - - - - - - - - -tgcagat
- - - - - - - - - - - - - - - - - - - - - - aatgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaaacc