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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttgtgaaagtcttcatttgcattatttcgactgtagaaattctccattcaagtaaataaataaataaataattttgttgtcttgggatttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGTGGGTTTGTTCCTTTCTCACAGATATCATCA

Basic information

species Vitis vinifera
transcript Vv05s0077g00450.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0077g00450.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G30510.1 (Arabidopsis thaliana), 3'ss of exon 2
gtttgtgaaagtcttcatttgcattatttcgactgtagaaattctccattcaagtaaataaataaataaataattttgttgtcttgggatttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGTGGGTTTGTTCCTTTCTCACAGATATCATCA
|| |||   |  |||  ||   | ||||  |  |   |   || |   |||| |                 |||||  ||||         |||||| ||||| | ||||| || ||||||||| |||| ||  | ||||| ||||||||||| ||||| || || || ||||||||||| 
gtatgtttgaaacttgtttgctactattgtggtttctgtggttatagtttcagg-----------------aatttgattgt---------tatgtgtagGTTATTGGTGCTAACAAAGGTGGATTGGTTGCTCTTGTGGAAGGTCTTCGTGGATTTGTGCCCTTTTCGCAGATATCATCG
















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|349826987|gb|FQ419078.1|FQ419078
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|352790289|gb|FQ481488.1|FQ481488
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|110371788|gb|EC935911.1|EC935911
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|351020178|gb|FQ445785.1|FQ445785
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|351012632|gb|FQ430195.1|FQ430195
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|351035225|gb|FQ458582.1|FQ458582
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|77585781|gb|DV221988.1|DV221988
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTG
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTG
EST: gi|110699651|gb|EE076846.1|EE076846
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|161721087|gb|FC070010.1|FC070010
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|77584045|gb|DV221061.1|DV221061
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|351021937|gb|FQ437724.1|FQ437724
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|110375562|gb|EC940562.1|EC940562
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|351038573|gb|FQ464439.1|FQ464439
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|349810864|gb|FQ405852.1|FQ405852
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAAGGTGGAGTGGTGGCATTTGGTGG
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAA-GGTGGAGTGGTGGCATT-GGTGG
EST: gi|352764064|gb|FQ467634.1|FQ467634
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|351019601|gb|FQ439418.1|FQ439418
EST:     GGGAACGATGTAGACAGCTCCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|349825550|gb|FQ419467.1|FQ419467
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|351040297|gb|FQ425383.1|FQ425383
EST:     GGGAACGATGTACACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|161710968|gb|FC060323.1|FC060323
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATAGTTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|71871946|gb|DT021001.1|DT021001
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|110382331|gb|EC939186.1|EC939186
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|349816444|gb|FQ403819.1|FQ403819
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|349819177|gb|FQ412071.1|FQ412071
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATATTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|33402614|gb|CF208241.1|CF208241
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGATGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|349809699|gb|FQ398304.1|FQ398304
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
EST: gi|351019744|gb|FQ439561.1|FQ439561
EST:     GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAG                         GTTGTAGGTGCAAATAAAGGCGGAGTGGTGGCATTGGTGGAGGGTCTTCGT
genomic: GGGAACGATGTAGACAGCTTCAGGCTGAGGATGTTGTTGTGAAGGGTAAGgtgggttctt ... ttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccattcaagtaaataaataaataaataattttgttgtcttgggatttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGTGGGTTTGTTCCTTTCTCACAGATATCATCA
      aagtaaataaataaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtgaaagtcttcatttgcattatttcgactgtagaaattctccattcaagtaaataaataaataaataattttgttgtcttgggatttatgtgcagGTTGTAGGTGCAAATAAAGGTGGAGTGGTGGCATTGGTGGAGGGTCTTCGTGGGTTTGTTCCTTTCTCACAGATATCATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - -catttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtcttg