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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTGCAGCTATGGGAGTAAACATGGAGACTGCACAGTTTTTTAAACGTGATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatattaaattaatatagtggtatttattattgtttgtggtgtaaattctaaattttaaaccaggcttcagaatagttggctttgaatagtttctgatatgctcaagtggacag

Basic information

species Vitis vinifera
transcript Vv03s0038g02760.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA10G42940.1 (Glycine max), 5'ss of exon 8
TTTTGCAGCTATGGGAGTAAACATGGAGACTGCACAGTTTTTTAAACGTGATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatatta-aattaatata-gtggtatttattattgt-ttgtggtgtaaattctaaattttaaaccaggcttcagaatagttggctttgaatagtttctgatatgctcaagtggacag
 ||||||||||||||||| ||||||||||||||||||||||| |||||||| || ||||| |||||||||||||||||||||||||| ||||||||  |||||    | | | |||||| ||  |      | | ||||   |  |    ||| ||    |||| ||  ||||    | ||  | || |   ||| || |                      
ATTTGCAGCTATGGGAGTTAACATGGAGACTGCACAGTTTTTCAAACGTGACTTTGAGGAGAATGGATCAATGGAGAGAGTGACTCTTTTCCTTAATTTGgtaaccctttaacaattaaaatctgccaacgtcactattacatcatcaattaactttgttatttgaatgcagggactaaaagtggtgaccaagaaaaggt----------------------

upper sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA20G24070.1 (Glycine max), 5'ss of exon 9
TTTTGCAGCTATGGGAGTAAACATGGAGACTGCACAGTTTTTTAAACGTGATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatattaaattaatatagtggtatttattattgtttgtggtgtaaatt--ctaaattttaaaccaggcttcagaatagttggctttgaatagtttctgatatgctcaagtggacag
 ||||||||||||||||| ||||||||||||||||||||||| || ||||| || ||||| |||||||||||||||||||||||||| ||||||||  ||||| || | | ||| | | |   || ||    |  | |||   |   | ||||      |||| ||  |||     | ||  | || |   ||| | | | |                   
GTTTGCAGCTATGGGAGTTAACATGGAGACTGCACAGTTTTTCAAGCGTGACTTTGAGGAGAATGGATCAATGGAGAGAGTGACTCTTTTCCTTAATTTGgtaattctttaaaaattaaaatctgttaac-gtcgtcgtt-acgtcatcaattaatgttatttgaatgcagagactaaaagcggtgacgaagaa-aatgttta------------------

upper sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA18G48280.1 (Glycine max), 5'ss of exon 8
TTTTGCAGCTATGGGAGTAAACATGGAGACTGCACAGTTTTTTAAACGTGATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatattaaattaatatagtggtatttattattgtttgtggtgtaaattctaaattttaaaccaggcttcagaatagttggctttgaatagtttctgatatgctcaagtggacag
 ||||||||||||||||| ||||||||||||||||||||||| |||||||| || ||||||||||| || |||||||||||||| || |||||||| |||||| |  | |  ||  | |||     |  |  ||  |   | |        ||||   || |  ||  | |||||   |      ||||| |   ||    || |  |  ||       
-TTTGCAGCTATGGGAGTTAACATGGAGACTGCACAGTTTTTCAAACGTGACTTTGAGGAAAATGGCTCGATGGAGAGAGTGACCCTTTTCCTTAATCTGGtagtctt-tagaaccagtatgcaaatgctcttttattcctat--------ttctttgttgtttacttgccttca---tttccttctttgtaattttgtctatgtatttgaga------

upper sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA09G38110.2 (Glycine max), 5'ss of exon 8
TTTTGCAGCTATGGGAGTAAACATGGAGACTGCACAGTTTTTTAAACGTGATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatattaaattaatatagtggtatttattattgtttgtggtgtaaattctaaattttaaaccaggcttcagaatagttggctttgaatagtttctgatatgctcaagtggacag
 ||||||||||||||||| ||||||||||||||||||||||| |||||||| || ||||| ||||| || |||||||||||||| || |||||||| |||||| |  | |  ||  | |||     | ||  ||  |     |        ||||   || |  ||  | ||||   ||      ||||| |   ||    || |  |           
GTTTGCAGCTATGGGAGTTAACATGGAGACTGCACAGTTTTTCAAACGTGACTTTGAGGAGAATGGCTCGATGGAGAGAGTGACCCTTTTCCTTAATCTGgtagtctt-tagaaccagtatgcaaatgttcttttattcccat--------ttctttgttgtttacttgccttcctgatttccttctttgtaattttatctatgtagtt----------

upper sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: AT4G38510.4 (Arabidopsis thaliana), 5'ss of exon 9
TTTTGCAGCTATGGGAGTAAACATGGAGACTGCACAGTTTTTTAAACGTGATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatattaaattaatatagtggtatttattattgtttgtggtgtaaattctaaattttaaaccaggcttcagaatagttggctttgaatagtttctgatatgctcaagtggacag
 || ||||| ||||| || ||||||||||||||||| ||||||||||||||||||||||| |||||||| ||||||||||||||||| ||||||||| ||| |  | |   || | |   ||  |  || |   |          | | | ||| ||  |||     | | ||    ||  |    |  | | ||                        
GTTCGCAGCAATGGGTGTGAACATGGAGACTGCACAATTTTTTAAACGTGATTTCGAGGAGAATGGATCGATGGAGAGAGTGACTCTTTTCCTTAACTTGgcaagtctcgcaa-tcacactacagacatcttgaagca-----aattttagttccaatgtttttctgaaggtttctcattctgttttccgcacag------------------------

upper sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: PP1S100_117V6.1 (Physcomitrella patens), 5'ss of exon 8
TTTTGCAGCTATGGGAGTAAACATGGAGACTGCACAGTTTTTTAAACGTGATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtattt-atattaaattaatatagtggtatttattattgtttgtggtgtaaattctaaattttaaaccaggcttcagaatagttggctttgaatagtttctgatatgctcaagtggacag
|||||||||||||||||| ||||||||||| ||    || || |||||||||||||||||||| || || |||||||||||||| || || || ||  |||||| | |  || |||    ||  |  | ||||  |  |     | | |     |     ||     |    |||||||    | ||| | | |  |||    |                
TTTTGCAGCTATGGGAGTTAACATGGAGACAGCTACCTTCTTCAAACGTGATTTCGAGGAAAACGGGTCCATGGAGAGAGTGACACTTTTTCTCAATTTGgtatctcacttttaatcttcatcttc-tgtttaacacggca-aagatatcttcaccgtggttgtgttcctagttcagaac---tagctcttattccttttccctg---------------

upper sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: PP1S425_12V6.1 (Physcomitrella patens), 5'ss of exon 7
TTTTGCAGCTATGGGAGTAAACATGGAGACTGCACAGTTTTTTAAACGTGATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatattaaattaatatagtggtatt----tattattgtttgtggtgtaaattctaaattttaaaccaggcttcagaatagttggctttgaatagtttctgatatgctcaagtggacag
                 | ||||||||||| ||    || || |||||||||||||| ||||||||||| |||||||||||||| || || || ||| |||||| | |   |  |||||||    ||||     ||  |  |  | ||| ||| || || || ||    || || |  |   | | |||    |   ||| |                     
-----------------TTAACATGGAGACAGCTACTTTCTTCAAACGTGATTTCGAAGAAAATGGATCTATGGAGAGAGTGACACTTTTTCTCAACTTGgtatgt-ttcaatcttaatattcctgtatccctctaccacagcat-tggagtacatactcaacttcgt-cctggttgtactctggatggaagcgtggagtgtt--------------------

upper sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: PP1S85_75V6.1 (Physcomitrella patens), 5'ss of exon 7
TTTTGCAGCTATGGGAGTAAACATGGAGACTGCACAGTTTTTTAAACGTGATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat--taaattaa----tatagtggtatttattattgtttgtggtgtaaattctaaatttta---aaccaggcttcagaatagttggctttgaatagtttctgatatgctcaagtggacag------------------------------------------------------------------------
||| || ||||||||||| |||||||| |||||    || || ||||| ||||| || ||||||||||| |||||||||||||| || || || ||  |||||| || ||  | | ||      ||| || |  |||       ||| |||  || ||    || || |   |       |||  ||| |   |  | |  |  |||  ||  |    ||||  |                                                                           
TTTCGCCGCTATGGGAGTGAACATGGAAACTGCCACTTTCTTCAAACGCGATTTTGAAGAAAATGGATCCATGGAGAGAGTGACACTTTTTCTCAATTTGgtatgtacatcttcagttttcttttatcgtcgattttcaccacatttttggattatatatggaacttcatccagtttcttttcgtaatgga-agagtcgtctgttttgagacttcacaaagtcaattttcctccagtccttgcgtttttttcctggattaagttctggaattttattttaggatcgtcttgggctttcag

upper sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: EFJ11911 (Selaginella moellendorffii), 5'ss of exon 7
TTTTGCAGCTATGGGAGTAAACATGGAGACTGCACAGTTTTTTAAACGTGATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtat-ttatattaaattaatatagtggtatttattattgtttgtggtgtaaattctaaattttaaaccaggcttcagaatagttggctttgaatagtttctgatatgctcaagtggacag
 |||||||||||||| || ||||||||||||||||||||||| ||| | ||||| |||||||||||||| ||||| ||||| ||  | ||| | |||||||||  ||||        |||      |  ||| |  |  |   | ||||    |  |                                                               
CTTTGCAGCTATGGGTGTGAACATGGAGACTGCACAGTTTTTCAAAAGGGATTTTGAGGAAAATGGATCGATGGAAAGAGTCACATTGTTCTTAAACCTGgtacgttatggattgacaatgccaatgcgtttttactcctccatcgtgtttcgtacag--------------------------------------------------------------

upper sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: EFJ13375 (Selaginella moellendorffii), 5'ss of exon 7
TTTTGCAGCTATGGGAGTAAACATGGAGACTGCACAGTTTTTTAAACGTGATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatattaaattaatatagtggtatttattattgtttgtggtgtaaattctaaattttaaaccaggcttcagaatagttggctttgaatagtttctgatatgctcaagtggacag
 |||||||||||||| || ||||||||||||||||||||||| ||| | ||||| |||||||||||||| ||||| ||||| ||  | ||| | |||||||||  | |||  | | |  ||     |   | ||      |     ||   |  || |                                                             
CTTTGCAGCTATGGGTGTGAACATGGAGACTGCACAGTTTTTCAAAAGAGATTTTGAGGAAAATGGATCGATGGAAAGAGTCACATTGTTCTTAAACCTGgtacgt-tatggattgacaatgccaatgcgtttttactcctccatcgtgcttcgtacag------------------------------------------------------------

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|110720101|gb|EE095728.1|EE095728
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|110719306|gb|EE097131.1|EE097131
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|30129885|gb|CB915224.1|CB915224
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|30325484|gb|CD008746.1|CD008746
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCAAC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|110712807|gb|EE088186.1|EE088186
EST:     GGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: GGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|33402634|gb|CF208261.1|CF208261
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|110723346|gb|EE100552.1|EE100552
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|156737783|gb|EV241904.1|EV241904
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|30323990|gb|CD007252.1|CD007252
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCA
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCA
EST: gi|32248996|gb|CD714815.1|CD714815
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|71862037|gb|DT011092.1|DT011092
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|34542425|gb|CF510657.1|CF510657
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|27755418|gb|CB036173.1|CB036173
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|32249022|gb|CD714841.1|CD714841
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|46917753|gb|CN547082.1|CN547082
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|110424996|gb|EC991371.1|EC991371
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|56409525|gb|CX017777.1|CX017777
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACC
EST: gi|56409500|gb|CX017752.1|CX017752
EST:     ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTG                         GCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTC
genomic: ATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatat ... aagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTGCAGCTATGGGAGTAAACATGGAGACTGCACAGTTTTTTAAACGTGATTTCGAGGAAAATGGATCAATGGAGAGAGTGACTCTATTCCTTAACCTGgtatttatattaaattaatatagtggtatttattattgtttgtggtgtaaattctaaattttaaaccaggcttcagaatagttggctttgaatagtttctgatatgctcaagtggacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA