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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTATTCAGAATTACTATGTCAATCCTTTCCTTAACAAAGTATACACTCCTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttctgttctaaatcaatcagtaggggttcatatatacttcacacttgctttagtactattaggatggtgttgattaactactgtctttgaaaatag

Basic information

species Vitis vinifera
transcript Vv09s0002g03140.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g03140.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA08G21340.1 (Glycine max), 5'ss of exon 3
TTTTATTCAGAATTACTATGTCAATCCTTTCCTTAACAAAGTATACACTCCTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttctgttctaaatcaatcagtaggggttcatatatacttcacacttgctttagtactattaggatg-gtgttga-ttaactactgtctttgaaaatag-----
 ||| | || ||||| |||||||||||||   | |||||||| |||||||||||||||||| | ||   | |  ||||   ||| || || ||  | |||||||| |  |   |||     || |       || |||||||  | | | ||| |  || ||||| | ||   ||  | | |  |  | | | |||| | |||      
CTTTGTGCAAAATTATTATGTCAATCCTTGGATCAACAAAGTCTACACTCCTGATCAGTATTCGTCCTACTTAATTGGTTCATTCTCAAGTTTTGTTAAGgtattctattaaactattgtgatta-------tttatatatatat-ata-ttgttggagaactataaagacaagtaataagtctataagtctgtttggatataaggtta

upper sequence: Vv09s0002g03140.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA07G01680.1 (Glycine max), 5'ss of exon 3
TTTTATTCAGAATTACTATGTCAATCCTTTCCTTAACAAAGTATACACTCCTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttctgttctaaatcaatcagtaggggttcatatatacttcacacttgctttagtac-tattaggatggtgttgattaactactgtctttgaaaatag
 ||| | || ||||| |||||||||||||   | |||||||||||| |||||||||||||| | ||   | | |||||   ||| || || ||  | ||||||||||  |   |||      | | |   | | | ||||| |||   || |   |   ||  ||||      |   | || ||  |   |      || |  
CTTTGTGCAAAATTATTATGTCAATCCTTGGATCAACAAAGTATACTCTCCTGATCAGTATTCATCCTACTTAGTTGGTGAATTCTCAAGTTTTGTTAAGgtattttgttaaactattgtggttatttttgctac-tatat-cttagaacatatatatatatatattgttggagaact-ataaagcaaaataaagacaagtta
















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|110708453|gb|EE086014.1|EE086014
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCCCTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|30252467|gb|CB970018.1|CB970018
EST:     TTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110690654|gb|EE068002.1|EE068002
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|37188415|gb|CF607764.1|CF607764
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110416850|gb|EC982858.1|EC982858
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGGTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|77578102|gb|DV217820.1|DV217820
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110699841|gb|EE077205.1|EE077205
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|349829471|gb|FQ420003.1|FQ420003
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|30297185|gb|CB973979.1|CB973979
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|351026188|gb|FQ428200.1|FQ428200
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGNGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110707884|gb|EE084789.1|EE084789
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|351036838|gb|FQ459360.1|FQ459360
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110690689|gb|EE068066.1|EE068066
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110699441|gb|EE076440.1|EE076440
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110398746|gb|EC965220.1|EC965220
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|349820296|gb|FQ403912.1|FQ403912
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCGTCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110693430|gb|EE069653.1|EE069653
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110688538|gb|EE067202.1|EE067202
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|87586795|gb|DY474925.1|DY474925
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110361815|gb|EC925315.1|EC925315
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|352786676|gb|FQ479883.1|FQ479883
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110426154|gb|EC992551.1|EC992551
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGGTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|30252385|gb|CB969936.1|CB969936
EST:     TTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|33405107|gb|CF210734.1|CF210734
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110689277|gb|EE065361.1|EE065361
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|351032432|gb|FQ458797.1|FQ458797
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|71877396|gb|DT026451.1|DT026451
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACT
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACT
EST: gi|110372095|gb|EC936240.1|EC936240
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         TACTTGTATGGCTTGGGGGCAAGGAGAATGGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|351030663|gb|FQ438501.1|FQ438501
EST:     CTGATCAGTATGCCTCAATCCTCTTTGGCATATTTTCCAGCTTCATCAAG                         GACTTGTATGGTTTGGGGGCAAGGAAAATTGGGCTGACTTCACTCCCACCC
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110697427|gb|EE074406.1|EE074406
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAG                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
EST: gi|110707568|gb|EE084113.1|EE084113
EST:     CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAA                         GACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA
genomic: CTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttct ... ttgaaaatagGACTTGTATGGCTTGGGGGCAAGGAGAATTGGGCTGACTTCACTCCCACCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTATTCAGAATTACTATGTCAATCCTTTCCTTAACAAAGTATACACTCCTGATCAGTATGCCTCAATCCTCGTTGGCATATTTTCGAGCTTCATCAAGgtatttttctgttctaaatcaatcagtaggggttcatatatacttcacacttgctttagtactattaggatggtgttgattaactactgtctttgaaaatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT