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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGAGAATCAGATAGGAGCAAAGTTTGAAGAGGATGTTGATGTGATGCTTCCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgatttcatctcatatttgatctggctgatttgttctcatctaaaaattaactttttagccaaacataggatcagttcatgtggagcaaattattt...

Basic information

species Vitis vinifera
transcript Vv14s0066g01320.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0066g01320.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA19G01200.1 (Glycine max), 5'ss of exon 3
TGGAGAATCAGATAGGAGCAAAGTTTGAAGAGGATGTTGATGTGATGCTTCCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgatttcatctcatatttgatctggctgatttgttctcatctaaaaattaactttttagccaaacataggatcagttcatgtggagca-aattattt
|||||||  |||| |||||||||||||| |||||  ||||||  |||||||| || |||||  ||||||| ||||||||||||||||||||| | |||| |||    ||  || ||  |    |||      | |   |    |  |||  || |    ||  | |     | ||  | |    |  | ||| ||| | | 
TGGAGAAAGAGATTGGAGCAAAGTTTGAGGAGGACCTTGATGCAATGCTTCCAAAGTGTGATGTAATTGTTATCAACATGCCTCTTACTGAACAGACAAGgtatactttctatatctcaaacaatcaaaaacactatctacacttgaaatcttgatccatttacaatgttcaagactattatgagcagtgcataatcagt-
















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|352763995|gb|FQ467565.1|FQ467565
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|33409026|gb|CF214653.1|CF214653
EST:     CCTAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGTGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|161715982|gb|FC065526.1|FC065526
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|30130146|gb|CB915485.1|CB915485
EST:     ATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGTGTTCTAAT
genomic: ATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|110426720|gb|EC993138.1|EC993138
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|28961860|gb|CB340934.1|CB340934
EST:     CCTAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGTGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|22012396|gb|BQ797430.1|BQ797430
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|22009020|gb|BQ794054.1|BQ794054
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|110708144|gb|EE085353.1|EE085353
EST:     CCTAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGTGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|352764468|gb|FQ472825.1|FQ472825
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|34320409|gb|CF373163.1|CF373163
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|110374898|gb|EC939839.1|EC939839
EST:     CCTAAATGTGACATAAATGTCATCAACATGCCTCTTACTGAAAAA-CAAA                         AGGAATGTTCAACAA
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAA
EST: gi|30321330|gb|CD004592.1|CD004592
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGA
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGA
EST: gi|28963772|gb|CB342805.1|CB342805
EST:     CCTAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGTGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|352794929|gb|FQ477039.1|FQ477039
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|30300514|gb|CB977308.1|CB977308
EST:     CCTAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAG
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAG
EST: gi|22013923|gb|BQ798957.1|BQ798957
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|161714888|gb|FC063039.1|FC063039
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAA
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAA
EST: gi|110373972|gb|EC938412.1|EC938412
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|22012397|gb|BQ797431.1|BQ797431
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|352764651|gb|FQ469726.1|FQ469726
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|110716652|gb|EE091831.1|EE091831
EST:     CCTAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGTGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|46917788|gb|CN547117.1|CN547117
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|110385211|gb|EC949715.1|EC949715
EST:     CCTAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGTGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|110409955|gb|EC975630.1|EC975630
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|352782551|gb|FQ476631.1|FQ476631
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|33409105|gb|CF214732.1|CF214732
EST:     TACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGTGTTCTAAT
genomic: TACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|45771134|gb|CN006986.1|CN006986
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|110393293|gb|EC958429.1|EC958429
EST:     CCTAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGTGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|34543645|gb|CF511877.1|CF511877
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|110732811|gb|EE108422.1|EE108422
EST:     CCTAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGTGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|352782128|gb|FQ470030.1|FQ470030
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|22009993|gb|BQ795027.1|BQ795027
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|110685824|gb|EE062884.1|EE062884
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|32246066|gb|CD711885.1|CD711885
EST:     CCCAAATGTGACATAATTGTCATCAACATGCCTCTTANTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT
EST: gi|110381266|gb|EC946589.1|EC946589
EST:     CCTAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAA                         AGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGTGTTCTAAT
genomic: CCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgattt ... tgtaattcagAGGAATGTTCAACAAAGAGAGGATTGCAAAGTTGAAAAAGGGAGTTCTAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGAGAATCAGATAGGAGCAAAGTTTGAAGAGGATGTTGATGTGATGCTTCCCAAATGTGACATAATTGTCATCAACATGCCTCTTACTGAAAAAACAAAgtaacgatttcatctcatatttgatctggctgatttgttctcatctaaaaattaactttttagccaaacataggatcagttcatgtggagcaaattattt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaacata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagcaaa