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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGGGACCACGCAACTCTGAACATCAATGTCTTATAAAACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaatgtttgttgggtgctttttgcaacacaatgaagaacatttaaaccgcttctttgattggatcttttgggttcttcttccacagaaaattag...

Basic information

species Vitis vinifera
transcript Vv19s0014g01250.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g01250.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA13G34470.1 (Glycine max), 5'ss of exon 2
CCGGGACCACGCAACTCTGAACATCAATGTCTTATAAAACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaatgtt-tgttgg---------gtgctttttgcaacacaatgaaga-acatttaaaccgcttctttgattggatcttttgggttcttcttccacagaaaattag
|| ||||||||  ||  |   || |||||||||||||| ||||||||||| | |||||| |||||  | || ||||| ||||   | ||||||||| | || | ||||          |  |||||         |   || |    | ||       | || | |  |    ||   || | | |             
CCAGGACCACGTGACGTTCCCCACCAATGTCTTATAAAGCGGAACAAGAAAACTTCAACTTTTTATTTATATCTTGCCCTTACACCATgtaagtaagtattgtattggtaaaaggttttaatttttcttgtctgttctggagatggatgaaaaagaattatggtggagttgaatgctctcctgtgctc-----------

upper sequence: Vv19s0014g01250.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA12G35920.1 (Glycine max), 5'ss of exon 2
CCGGGACCACGCAACTCTGAACATCAATGTCTTATAAAACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaatgtt-tgttgg---------gtgctttttgcaacacaatgaagaa-catttaaaccgcttctttgattggatcttttgggttcttcttccacagaaaattag
|| ||||||||  ||  |   || |||||||||||||| |||||| ||||||  |||||||||||  | || ||||| ||||   | ||||||||| | || | ||||          |  |||||         |   |||     | ||       | ||   |  |    ||   || | | |             
CCAGGACCACGTGACGTTCCCCACCAATGTCTTATAAAGCGGAACCAGAAGACCTCAACGTTTTATTTATATCTTGCCCTTACACCATgtaagtaagtattgtattggtaaaaggttttaatttttcttgtctgttctggaaatggatgaatatgaattatggcggagttgaatgatctcctgtgctc-----------
















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|351055037|gb|FQ440376.1|FQ440376
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|351032270|gb|FQ461523.1|FQ461523
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|71872640|gb|DT021695.1|DT021695
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|351056453|gb|FQ454314.1|FQ454314
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|352798883|gb|FQ480732.1|FQ480732
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|161713648|gb|FC062550.1|FC062550
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|110708836|gb|EE086829.1|EE086829
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|352790032|gb|FQ479642.1|FQ479642
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|349817991|gb|FQ407980.1|FQ407980
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|349832891|gb|FQ423013.1|FQ423013
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|77584477|gb|DV221307.1|DV221307
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|351022168|gb|FQ438753.1|FQ438753
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATAGAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|351038773|gb|FQ464639.1|FQ464639
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATGAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|351032812|gb|FQ461701.1|FQ461701
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|161718362|gb|FC066304.1|FC066304
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|351053975|gb|FQ441741.1|FQ441741
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|351051579|gb|FQ450131.1|FQ450131
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|349811397|gb|FQ407623.1|FQ407623
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|351029875|gb|FQ427715.1|FQ427715
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|110730771|gb|EE108231.1|EE108231
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTANTTCGT                         CATTCACAGATAAGGGGAAATTTCTCTTAACTGCTCGAAGATAAAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|30251916|gb|CB969649.1|CB969649
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|161718790|gb|FC067326.1|FC067326
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTT-CCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|349807495|gb|FQ401488.1|FQ401488
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|349817493|gb|FQ407283.1|FQ407283
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|37186503|gb|CF605856.1|CF605856
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCT
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCT
EST: gi|110714004|gb|EE090419.1|EE090419
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|351054882|gb|FQ440221.1|FQ440221
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|71889067|gb|DT038122.1|DT038122
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|352782688|gb|FQ476768.1|FQ476768
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTC-CACGATAAGGGGAAGTTTCTCCTAGCTGCTCCAAAATATAGGCAT
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACA-GATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCAT
EST: gi|161721414|gb|FC070778.1|FC070778
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|294966769|gb|GW837788.1|GW837788
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|352786855|gb|FQ481230.1|FQ481230
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
EST: gi|71871589|gb|DT020644.1|DT020644
EST:     ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGT                         CATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG
genomic: ACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaat ... tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCGGGACCACGCAACTCTGAACATCAATGTCTTATAAAACGGAACAAGAAGAATTCAACGTTTTACCTTTACCTTGCTCTTAGTTCGTgtaagtaaatgtttgttgggtgctttttgcaacacaatgaagaacatttaaaccgcttctttgattggatcttttgggttcttcttccacagaaaattag

- - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaaaat