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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAACGTTGAGCACCATGTTGGTGACCGTGGGGTCTTCGCTAGGGCTTCTGGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattcagttttgtcgtccttgattctgcttgttgagttctttttgagtttattgatttgatttgtgtgattgaaatattgagaagttgttatttg...

Basic information

species Vitis vinifera
transcript Vv19s0014g04760.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g04760.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G067456_T01 (Zea mays), 5'ss of exon 1
GTAACGTTGAGCACCATGTTGGTGACCGTGGGGTCTTCGCTAGGGCTTCTGGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggat----tcag--ttttgtcgtccttgattctgcttgttgagttctttttgagtttattgatttgatt-tgtgtgattgaaatattgagaagttgttatttg
| ||||| |||||||| ||||||||||| || |||||||| ||||| ||||| || |||||||| ||| | ||||||||||| ||||| |||||||| |||| |  |     ||||  |     | | ||  |||    | || |  |      ||| | |  |  || || | || ||  ||| |  | |    |  || |||   
GCAACGTCGAGCACCACGTTGGTGACCGCGGTGTCTTCGCCAGGGCCTCTGGGGACTACGCCATCGTGATCAGCCACAACCCTGACAACGGAACCTCGAGgtcttaacaccatcagcatccctcctttctctatttcattcgtaggatgagacctga-tgtggtagttcgactatgagtacttgtatcact----atctgatatg--

upper sequence: Vv19s0014g04760.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G077851_T01 (Zea mays), 5'ss of exon 1
GTAACGTTGAGCACCATGTTGGTGACCGTGGGGTCTTCGCTAGGGCTTCTGGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattcagttttgtcgtccttgattctgcttgtt--gagttctttttgagtttattgatttgatttgtgtgattgaaatattgagaagt-tgttatttg
| ||||| |||||||| || |||||||| || |||||||| ||||| ||||| || |||||||||||| | ||||||||||| ||||| || || || |||| || |  |  |   |    |    |||    |  ||   | ||   | |||    ||    |  |   |||   |    ||||     | | || |||   
GCAACGTCGAGCACCACGTCGGTGACCGCGGTGTCTTCGCCAGGGCCTCTGGGGACTACGCCATTGTGATCAGCCACAACCCTGACAACGGCACATCGAGgtctgaacacgatcacgaaccctcctatttcattgatttgtaatttcgtatgatgagatctggtgtagccgtggagtaattatatcactgaatatgatat---
















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|71890693|gb|DT039748.1|DT039748
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|110727760|gb|EE104887.1|EE104887
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|351022777|gb|FQ428686.1|FQ428686
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|71875676|gb|DT024731.1|DT024731
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCAAAAAAGATTATACCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|71865460|gb|DT014515.1|DT014515
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|71876846|gb|DT025901.1|DT025901
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCAAAAAAGATTATACCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|71872924|gb|DT021979.1|DT021979
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCAAAAAAGATTATACCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|351016718|gb|FQ424145.1|FQ424145
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|351031241|gb|FQ445266.1|FQ445266
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|351033903|gb|FQ462312.1|FQ462312
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|161714749|gb|FC063921.1|FC063921
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATT---CCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|110687057|gb|EE064133.1|EE064133
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|351024038|gb|FQ423461.1|FQ423461
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|352785438|gb|FQ477652.1|FQ477652
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|351026702|gb|FQ436355.1|FQ436355
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|351039739|gb|FQ464777.1|FQ464777
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|71876627|gb|DT025682.1|DT025682
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCAAAAAAGATTATACCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|110368430|gb|EC932405.1|EC932405
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|71874616|gb|DT023671.1|DT023671
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCAAAAAAGATTATACCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|349833190|gb|FQ416568.1|FQ416568
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|71868330|gb|DT017385.1|DT017385
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|349828806|gb|FQ419139.1|FQ419139
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|110417278|gb|EC983319.1|EC983319
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|110416961|gb|EC982979.1|EC982979
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|351052276|gb|FQ455448.1|FQ455448
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAGCTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|71875267|gb|DT024322.1|DT024322
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|110725473|gb|EE102018.1|EE102018
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|77577551|gb|DV217518.1|DV217518
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCAAAAAAGATTATACCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|110684624|gb|EE062115.1|EE062115
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|161717119|gb|FC069557.1|FC069557
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCAAAAAAGATTATACCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
EST: gi|161717882|gb|FC065980.1|FC065980
EST:     GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAG                         GATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC
genomic: GGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattc ... gcattgacagGATTAAACTTCCATCTGGGGCGAAAAAGATTATTCCAAGTGGTTGTCGTGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTAACGTTGAGCACCATGTTGGTGACCGTGGGGTCTTCGCTAGGGCTTCTGGTGATTACGCCATTGTGGTTAGCCACAACCCGGACAATGGAACCTCTAGgtatggattcagttttgtcgtccttgattctgcttgttgagttctttttgagtttattgatttgatttgtgtgattgaaatattgagaagttgttatttg

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