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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCATTGATTTTCTTGATAAGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttatatgggtcattgactgctatttctgttccttaatgccatagatttatggttaacttaaaaaaatagctgttcagtgggttggaccttattc...

Basic information

species Vitis vinifera
transcript Vv07s0129g00410.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA01G39950.1 (Glycine max), 5'ss of exon 9
GCCATTGATTTTCTTGATAAGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttatatgggtcattgactgctatttctgtt---ccttaatgccatagatttatggttaacttaaaaaaatagctgttcagtgggttggaccttattc
|| ||||||||||||||||||||||||||||||||||| ||||||||||| ||||| ||||| |||||||||||| || |  | ||||| | |  || || | |        | |  ||| | | | | |||   | ||    | | |  ||   ||| ||      || | 
GCAATTGATTTTCTTGATAAGCTCCTTCGATATGATCACCAGGACAGGCTAACAGCTAGAGAAGCAATGgtaatgataaagagctcattaatttgtagttttttcaacttgcagtaacatggttcttttgttgcatgaactttaaaacattt---tggattaacaaatactt

upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA11G05340.1 (Glycine max), 5'ss of exon 9
GCCATTGATTTTCTTGATAAGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttatatgggtcattgact-gctatttctgttccttaatgccatagatttatggtt-----aacttaaaaaaatagctgttcagtgggttggaccttattc
|| ||||||||||||||||||||||||||||||||||| ||||||||||| ||||| ||||| |||||||||||| || |  | |||||   | |   |||    |    | |  ||  | | | | |||     ||||| |||| ||    ||| |  |  |      ||||  
GCAATTGATTTTCTTGATAAGCTCCTTCGATATGATCACCAGGACAGGCTAACAGCTAGAGAAGCAATGgtaatgataaagagctcattagtttgtagttttcaatttgcagtaacaagggtcttttgttgcatgaactttaaaatattttcgtttaacgaata----tttat--

upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA17G17790.1 (Glycine max), 5'ss of exon 9
GCCATTGATTTTCTTGATAAGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttatatgggtcattgactgctatttctgttccttaatgccatagatttatggttaactt--aaaaaaatagctgttcagtgggttggaccttattc----------------------
|| ||||||||||||||||| ||||||||||| ||||| ||||||||||| ||||||||||| |||||||||||  || |  | |||||   |  ||           | ||    | |  |  || |||| ||  | || | |  ||| ||  | | ||  ||  | ||                       
GCAATTGATTTTCTTGATAAACTCCTTCGATACGATCACCAGGACAGGCTAACAGCAAGAGAAGCAATGgtaattataaagagctcattattt--taccgtaacatggttattttgttgtgtattgcttaatttgcacaatattttctgatcttttgatttaacaattttttatgcttgatgtattcccgcag

upper sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA05G22250.1 (Glycine max), 5'ss of exon 9
GCCATTGATTTTCTTGATAAGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttatatgggtcattgactgctatttctgttccttaatgccatagatttatggttaactt--aaaaaaatagctgttcagtgggttggaccttattc----------------------
|| ||||||||||||||||| ||||||||||| ||||| ||||||||| | ||||||||||| |||||||||||  || |  | ||||| | |  ||           | ||    | |  |  || |||| ||  | || | |   || ||  | | ||  || || ||                       
GCAATTGATTTTCTTGATAAACTCCTTCGATACGATCACCAGGACAGGTTAACAGCAAGAGAAGCAATGgtaataataaagagctcattaatt--tagcataacatggttattttgttgtgtattgcttaatttgcacaatattttatgatcttttgatttaacatttttttttatttgatgtattcccgcag

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|30305031|gb|CB981825.1|CB981825
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTTACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|110729560|gb|EE105636.1|EE105636
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTTACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|37187892|gb|CF607243.1|CF607243
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|30127890|gb|CB913229.1|CB913229
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|110364239|gb|EC923655.1|EC923655
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|110365854|gb|EC929354.1|EC929354
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTTACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|351030908|gb|FQ438944.1|FQ438944
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAACAAGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|110417189|gb|EC983224.1|EC983224
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTTACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|30304903|gb|CB981697.1|CB981697
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTTACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|110423934|gb|EC990287.1|EC990287
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTTACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|110731135|gb|EE109011.1|EE109011
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTTACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|110374218|gb|EC938850.1|EC938850
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTTACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|110692539|gb|EE071897.1|EE071897
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTTACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|110361331|gb|EC924797.1|EC924797
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTTACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|110384058|gb|EC948472.1|EC948472
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTTACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
EST: gi|254915687|gb|GR905118.1|GR905118
EST:     AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATG                         GCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA
genomic: AGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttat ... tccgctgtagGCACATCCATATTTCTTTCAAGTGAGGGCTGCAGAGAGTAGCAGGATGCGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCATTGATTTTCTTGATAAGCTCCTTCGATATGATCATCAGGACAGGCTGACAGCAAGAGAGGCAATGgtaatgttatatgggtcattgactgctatttctgttccttaatgccatagatttatggttaacttaaaaaaatagctgttcagtgggttggaccttattc

- - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa