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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataattatagttgtgattatgaaattggtaacaatcaccattgtgataatgtcaatgatgctataataatgaaaataacatgactctgatgatgacctgaacaatatctgtggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTCTTGATAGAGAGATGGATCTTGGGGCTTTTGTTCAGAAATACAAGAGGCT

Basic information

species Vitis vinifera
transcript Vv08s0007g04470.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g04470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G07250.1 (Glycine max), 3'ss of exon 4
gtaataattatagttgtgattatgaaattggtaacaatcaccattgtgataatgtcaatgatgctataataatgaaaataacatgactctgatgatgacctgaacaatatctgtggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTCTTGATAGAGAGATGGATCTTGGGGCTTTTGTTCAGAAATACAAGAGGCT
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gtatggcttcacatgatgatt-tacagtcatagacactta--attattataatcacaaaattttttcattgttatgacttgcttgttttcg-taatgtcttatgaaatgatt-----ttgcagAGGCTATGAATAATACAGAAGAGGAATCTGAAAATCTGCATCAGCAAGTCCTTGACAGAGAGATTGACCTTGGAGCTTTTCTGCAGAAATACAAAAAGCT
















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|351014668|gb|FQ437868.1|FQ437868
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|110425086|gb|EC991463.1|EC991463
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|110423993|gb|EC990346.1|EC990346
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|351016936|gb|FQ424363.1|FQ424363
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|351012120|gb|FQ429926.1|FQ429926
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|351014504|gb|FQ437506.1|FQ437506
EST:     AGAGATCTTAAAGTTCTACTCGCCTGCATGCTTGCTCCACAGGCTTCAAA                         AAA-TATGAACAAAACAGAGGAGGAATCTGAA
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAA
EST: gi|34547676|gb|CF515908.1|CF515908
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|32456148|gb|CD797322.1|CD797322
EST:     AGAGATCTTAAAGTTTTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATTTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|32249995|gb|CD715814.1|CD715814
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|352790359|gb|FQ477999.1|FQ477999
EST:     AGGGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|110381804|gb|EC935428.1|EC935428
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|351013583|gb|FQ429724.1|FQ429724
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|22013072|gb|BQ798106.1|BQ798106
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|351043786|gb|FQ431338.1|FQ431338
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|351053031|gb|FQ456638.1|FQ456638
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|110706591|gb|EE082261.1|EE082261
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|32271871|gb|CD721030.1|CD721030
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|30128535|gb|CB913874.1|CB913874
EST:     AGAGATCTTAAAGTTCTACTCNCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|349832473|gb|FQ421034.1|FQ421034
EST:     AGAGATCTTAAAGTTCTACTCTCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATTCTGAA-CTCTGCATAGGCAGCTT
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAAT-CTGAAACTCTGCATAGGCAGCTT
EST: gi|33403009|gb|CF208636.1|CF208636
EST:     AGAGATTTTAAAGTTTTACTCCCCTGCATGCTTGCTCCCCAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATTTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|351027883|gb|FQ448453.1|FQ448453
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|351057218|gb|FQ450925.1|FQ450925
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|351027610|gb|FQ446774.1|FQ446774
EST:     AGGGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|110399849|gb|EC966379.1|EC966379
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|349828235|gb|FQ416188.1|FQ416188
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTT
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTT
EST: gi|349823580|gb|FQ414990.1|FQ414990
EST:     AGGGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|33402920|gb|CF208547.1|CF208547
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|349827859|gb|FQ422727.1|FQ422727
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCCAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|110416745|gb|EC982747.1|EC982747
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
EST: gi|110369862|gb|EC934032.1|EC934032
EST:     AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAG                         AAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC
genomic: AGAGATCTTAAAGTTCTACTCCCCTGCATGCTTGCTCCACAGGCTTCAAGgtaataatta ... tggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatgaaaataacatgactctgatgatgacctgaacaatatctgtggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTCTTGATAGAGAGATGGATCTTGGGGCTTTTGTTCAGAAATACAAGAGGCT
      aaaataacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaataattatagttgtgattatgaaattggtaacaatcaccattgtgataatgtcaatgatgctataataatgaaaataacatgactctgatgatgacctgaacaatatctgtggttcgcagAAACTATGAACAAAACAGAGGAGGAATCTGAAACTCTGCATAGGCAGCTTCTTGATAGAGAGATGGATCTTGGGGCTTTTGTTCAGAAATACAAGAGGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG