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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGCAAAAGTCCTTCTTGGGGGTAAAAGACACAGTCTGGGAATGACCTTCTATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactctagtcaacatgtttattccaaaaattctgctaaggatacatatgtataattaaattgttggtgttatatgactatcaaaaaaaaaaaaaaaa...

Basic information

species Vitis vinifera
transcript Vv19s0085g00880.t01
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0085g00880.t01 (Vitis vinifera), 5'ss of exon 16
lower sequence: GRMZM2G119482_T01 (Zea mays), 5'ss of exon 16
GAGCAAAAGTCCTTCTTGGGGGTAAAAGACACAGTCTGGGAATGACCTTCTATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactct--agtca-acatgtttattccaaaaattctgctaag-----gataca-tatgtataattaaattgttggtgttatatgactatcaaaaaaaaaaaaaaaa-----------------------------------------
||||||| ||| | || || |||||||||||||| ||||||||| | || ||||||||||| ||| | ||  |  |||  ||||| |||||| ||   ||||||| | |  ||| | || |  | ||   || ||||      ||     | |  | |   || |||  | ||    |||  |    |   || || |   |  ||                                            
GAGCAAATGTCATGCTAGGTGGTAAAAGACACAGCCTGGGAATGTCATTTTATGAGCCAACTGTAGTAGGGAATGTCAGCAATGATATGCTTCTTTTCAGgtaaagtttacagttagaccttctaatcttaacaatttcaaccagaccttgttgtagtgcatagaatctactttcacgtgcgagtaaatggtctaatattgaggaattgtctgacacttcatagttgttaacatctttttttcatttcag
















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|27586388|gb|CB009083.1|CB009083
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|351040417|gb|FQ434550.1|FQ434550
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGGGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|30302041|gb|CB978835.1|CB978835
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|32245740|gb|CD711559.1|CD711559
EST:     ATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: ATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|30128391|gb|CB913730.1|CB913730
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|29785203|gb|CB341997.2|CB341997
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTACACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|352765000|gb|FQ473648.1|FQ473648
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|77586300|gb|DV222253.1|DV222253
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|351018416|gb|FQ439228.1|FQ439228
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|349820783|gb|FQ404157.1|FQ404157
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|77580016|gb|DV218890.1|DV218890
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|33407655|gb|CF213282.1|CF213282
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|110373835|gb|EC938222.1|EC938222
EST:     GGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: GGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|110395231|gb|EC960880.1|EC960880
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|34543124|gb|CF511356.1|CF511356
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACGTGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTNTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|110363491|gb|EC927084.1|EC927084
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|110378892|gb|EC944048.1|EC944048
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|110393201|gb|EC958271.1|EC958271
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|110714572|gb|EE091629.1|EE091629
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTCGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|110418290|gb|EC984428.1|EC984428
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|110728458|gb|EE104042.1|EE104042
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|34543207|gb|CF511439.1|CF511439
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACGTGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|29785173|gb|CB341929.2|CB341929
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTG-ATCCTGTTACACCCCTCTTGCGCTTTAAA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGA-CCTGTTGCACCCCTCTTGCGCTTTAAA
EST: gi|161716149|gb|FC069492.1|FC069492
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|33407050|gb|CF212677.1|CF212677
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCAAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|352763958|gb|FQ465408.1|FQ465408
EST:     CGGTAATTGGTGACATCAAG-ATGGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: CGGTAATTGGTGACATCAAGAAT-GACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|30134739|gb|CB920077.1|CB920077
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|351029837|gb|FQ427677.1|FQ427677
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|110693458|gb|EE069709.1|EE069709
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|110375935|gb|EC940965.1|EC940965
EST:     GGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: GGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|29781739|gb|CB346445.2|CB346445
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|27586231|gb|CB008926.1|CB008926
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|30251721|gb|CB969454.1|CB969454
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|37190549|gb|CF609898.1|CF609898
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|351040173|gb|FQ425259.1|FQ425259
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|110688619|gb|EE067379.1|EE067379
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTTTGGACCTGTTGCACCCCTCTTGCGCTTTAAAACCGAGGA
EST: gi|351033667|gb|FQ462197.1|FQ462197
EST:     TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAG                         GAATGAAGTGTT
genomic: TATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactcta ... tcttcaccagGAATGAAGTGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGCAAAAGTCCTTCTTGGGGGTAAAAGACACAGTCTGGGAATGACCTTCTATGAGCCAACGGTAATTGGTGACATCAAGAATGACATGCTTATTGCGAGgtaaactctagtcaacatgtttattccaaaaattctgctaaggatacatatgtataattaaattgttggtgttatatgactatcaaaaaaaaaaaaaaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaggata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aattaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa