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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTACAGGGCTCCTGAGCTTATATTTGGAGCAACTGAGTACACTACAGCTATTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtttattgatgctggtcgttgcagaagtgcatctaaaattcttggaacttgctttaaaatatgtcttccatttttgtcag

Basic information

species Vitis vinifera
transcript Vv14s0060g00600.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g00600.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA03G38850.1 (Glycine max), 5'ss of exon 8
TTACAGGGCTCCTGAGCTTATATTTGGAGCAACTGAGTACACTACAGCTATTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtttattgatgctggtcgttgcagaagtgca-tctaaaattcttggaacttgctttaaaatatgtcttccatttttgtcag
||| || || |||||||||||||||||||||||||| || |||||||||||||| || ||||| |  || || ||  |||||||| | |||||||||||||| ||| |||  ||||||   |    |       ||   | ||  ||   |  || |    ||    | | | ||  ||||||  |||
TTATAGAGCACCTGAGCTTATATTTGGAGCAACTGAATATACTACAGCTATTGACATTTGGTCAGTTGGCTGTGTATTGGCTGAGCTTATGCTTGGACAGgtaggtggtt-gttgatgggagctcctttgattctgtggtttagtatatgtaaaaatgaagtttg--tttcttttttattttt-ccag

upper sequence: Vv14s0060g00600.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA19G41420.2 (Glycine max), 5'ss of exon 8
TTACAGGGCTCCTGAGCTTATATTTGGAGCAACTGAGTACACTACAGCTATTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtttattgatgctggt--cgttgcagaagtgcatctaaaattcttggaacttgctttaaaatatgtcttccatttttgtcag
||| || || |||||||||||||||||||||||||| || ||||||||||||||  | ||||| |  ||||| ||  |||||||| | |||||||||||||| ||| |||  ||||||   |   |||||     |||  | ||| ||   |  || |    ||    | ||| |||||          
TTATAGAGCACCTGAGCTTATATTTGGAGCAACTGAATATACTACAGCTATTGACGTTTGGTCAGTTGGTTGTGTATTGGCTGAGCTTATGCTTGGACAGgtaggtggtt-gttgatgggagctccgttgattctgtg-gtttaatatatgtaaaaatgaaatttgtttttgttttccag---------

upper sequence: Vv14s0060g00600.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA20G22600.3 (Glycine max), 5'ss of exon 8
TTACAGGGCTCCTGAGCTTATATTTGGAGCAACTGAGTACACTACAGCTATTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtttattgatgctggtcgttgcagaagtgcatctaaaattcttggaacttgctttaaaatatgtcttccatttttgtcag
 || || || |||||||| |||||||| |||||||| || ||| |||| ||||| ||||||||||  || || ||| | |||||| |  ||||||||||||| ||| | |  ||||||      ||| |     |   | |    ||      | ||  || ||||| ||| ||   |||||  |||
CTATAGAGCACCTGAGCTCATATTTGGCGCAACTGAATATACTTCAGCCATTGACATCTGGTCTGTTGGATGTGTTTTAGCTGAGCTGCTGCTTGGACAGgttggtggct-gttgatgtgatctgtttct----ttttttttttgtttagtatatttaattaaaaat-tgtattttcttttta-cag

upper sequence: Vv14s0060g00600.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: EFJ07923 (Selaginella moellendorffii), 5'ss of exon 8
TTACAGGGCTCCTGAGCTTATATTTGGAGCAACTGAGTACACTACAGCTATTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgg-gtagtttattgatgctggtcgttgcagaagtgcatctaaaattcttggaacttgctttaaaatatgtcttccatttttgtcag
|||| | ||||| || ||||||||||| |||||||| ||||| ||||| || || ||||||||  | || |||||||||||||||||| | ||||| ||||| |  ||  |  |   |||   || || ||  | |||  || |   |||    | |   ||  |  | ||                 
TTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttgcaactc-ttccatta-tgccactcaccgtctcatcaatcatttccac-tgtgcag--------------

upper sequence: Vv14s0060g00600.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
TTACAGGGCTCCTGAGCTTATATTTGGAGCAACTGAGTACACTACAGCTATTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgg-gtagtttattgatgctggtcgttgcagaagtgcatctaaaattcttggaacttgctttaaaatatgtcttccatttttgtcag
 ||| | ||||| || ||||||||||| |||||||| ||||| ||||| || || ||||||||  | || |||||||||||||||||| | ||||| ||||| |  ||  |  |   |||   || || ||  | |||  || |   |||    | |   ||  |  | ||                 
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttgcaactc-ttccatta-tgccactcaccgtctcatcaatcatttccac-tgtgcag--------------

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|32270380|gb|CD719539.1|CD719539
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGG
EST: gi|34546629|gb|CF514861.1|CF514861
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|71862026|gb|DT011081.1|DT011081
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTC
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTC
EST: gi|71856504|gb|DT005559.1|DT005559
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|156737184|gb|EV241305.1|EV241305
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|161714435|gb|FC064434.1|FC064434
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|34546808|gb|CF515040.1|CF515040
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|110700433|gb|EE078469.1|EE078469
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|110712249|gb|EE089658.1|EE089658
EST:     TTGATATCTGGTCTGCAAGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|349828876|gb|FQ419209.1|FQ419209
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|30134321|gb|CB919659.1|CB919659
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|87584334|gb|DY473544.1|DY473544
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|110424518|gb|EC990881.1|EC990881
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|110416992|gb|EC983012.1|EC983012
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|110423991|gb|EC990344.1|EC990344
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|30302437|gb|CB979231.1|CB979231
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|110424369|gb|EC990727.1|EC990727
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTGGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|34543640|gb|CF511872.1|CF511872
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|30136122|gb|CB921460.1|CB921460
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|352789914|gb|FQ478729.1|FQ478729
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|156737183|gb|EV241304.1|EV241304
EST:     TGNATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTT-CTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TG-ATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|110694879|gb|EE072256.1|EE072256
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|34547149|gb|CF515381.1|CF515381
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|37187368|gb|CF606721.1|CF606721
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|33404123|gb|CF209750.1|CF209750
EST:     TTGATATCTGGTCCGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|110729460|gb|EE105432.1|EE105432
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAATTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|110386931|gb|EC951566.1|EC951566
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|30132732|gb|CB918071.1|CB918071
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|30129063|gb|CB914402.1|CB914402
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
EST: gi|71864720|gb|DT013775.1|DT013775
EST:     TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAG                         CCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG
genomic: TTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtt ... tttttgtcagCCTCTGTTTCCTGGAGAGAGTGGAGTCGATCAGCTTGTTGAGATTATCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTACAGGGCTCCTGAGCTTATATTTGGAGCAACTGAGTACACTACAGCTATTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgggtagtttattgatgctggtcgttgcagaagtgcatctaaaattcttggaacttgctttaaaatatgtcttccatttttgtcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG