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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACGTCTATACAGTGAACTGTGGCACGGCATATGGTCAAGCAGCAATGCTTCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatcaacttctctcctaaaagatttgaattatttctttttgtaaattttatttgtatcctagaagttgtcaagacaatgctgctttctgcatcct...

Basic information

species Vitis vinifera
transcript Vv03s0091g00700.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0091g00700.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA10G40390.1 (Glycine max), 5'ss of exon 6
GACGTCTATACAGTGAACTGTGGCACGGCATATGGTCAAGCAGCAATGCTTCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatcaacttctctcctaaaagatttgaattatttctttttgt----aaattttatttgt---atcctagaagttgtcaagacaatgctgctttctgcatcct
|| || ||||| ||||| ||||||| ||||| ||||||||||||||||||||| ||  ||||| | |||||||| |||| | ||||||||||| | || |||||||||||   | |||    |||  |||||||| ||| ||||| |    || |  |  ||||   ||  | ||| || | |    |||| | | |||   | |  
GATGTTTATACTGTGAATTGTGGCATGGCATTTGGTCAAGCAGCAATGCTTCTGTCGCTTGGAACAAAGGGTTATCGTGCTGTACAGCCAAATTCATCTAgtatgaatca---tatctatgcaaacttttgaattgtttttttttttgctcaattgcttcttgtggcattttggaacttctgac--taatgattccttcaagaac--

upper sequence: Vv03s0091g00700.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA20G26950.1 (Glycine max), 5'ss of exon 7
GACGTCTATACAGTGAACTGTGGCACGGCATATGGTCAAGCAGCAATGCTTCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatcaacttctctcctaaaagatttgaattatttctttttgtaaattttatttgta--tcctagaagttgtcaagacaatgctgctttctgcatcct--
|| |||||||| ||||| ||||||| ||||| ||||||||||||||||||||| ||  ||||| | ||||| || |||| | ||||||||||| | || |||||||||||   | |||    |||  |||| |  |      |   | | |  |  ||||   |  | | |  |    | | |||||| | |||   | |||  
GATGTCTATACTGTGAATTGTGGCATGGCATTTGGTCAAGCAGCAATGCTTCTGTCGCTTGGAACAAAGGGCTATCGTGCTGTACAGCCAAATTCATCTAgtatgaatca---tatctatgcaaacttttggagaaaaaaagtgcttgattgcttcttgtggctttttggaacttctgaca-aatgcttccttcaagagcctgt
















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|26266206|gb|CA817269.1|CA817269
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTACTATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCACAGAT
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTA-TATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGAT
EST: gi|110396404|gb|EC962089.1|EC962089
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|27579693|gb|CB002388.1|CB002388
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|26267312|gb|CA818375.1|CA818375
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|30321875|gb|CD005137.1|CD005137
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|28968092|gb|CB347125.1|CB347125
EST:     TTTATCAGTTGGAGCCAAGGGTTACCGTGGTTTACAGCCAAATGCCTCCC                         CGAAATTATATTTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|110391380|gb|EC956351.1|EC956351
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|26264295|gb|CA815358.1|CA815358
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTACTATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCACAGAT
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTA-TATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGAT
EST: gi|30321951|gb|CD005213.1|CD005213
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|110361742|gb|EC925238.1|EC925238
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCACAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|22007314|gb|BQ792348.1|BQ792348
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTTTACAGCCAAATGCCTCCA                         CGAAATTATATTTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|110685602|gb|EE062466.1|EE062466
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|26264973|gb|CA816036.1|CA816036
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|26258048|gb|CA809111.1|CA809111
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|32245203|gb|CD711022.1|CD711022
EST:     TCTATCAGTNGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|45770688|gb|CN006540.1|CN006540
EST:     CAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: CAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|352764297|gb|FQ471277.1|FQ471277
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|110388571|gb|EC953335.1|EC953335
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
EST: gi|110395310|gb|EC960968.1|EC960968
EST:     TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCA                         CGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA
genomic: TCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatca ... tgaattgcagCGAAATTATATCTACCTAAAGTAAACCGATCAAGTGGGGCTACCATAGATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACGTCTATACAGTGAACTGTGGCACGGCATATGGTCAAGCAGCAATGCTTCTATCAGTTGGAGCCAAGGGTTACCGTGGTCTACAGCCAAATGCCTCCAgtatgaatcaacttctctcctaaaagatttgaattatttctttttgtaaattttatttgtatcctagaagttgtcaagacaatgctgctttctgcatcct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagacaa