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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCAAACCTGAAATACTTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaatttaacatttgtgattaccttttcttagttggtatgatgatgttggatctgcgttatccaaatgtccaagtagaggttgagtttgtgggg...

Basic information

species Vitis vinifera
transcript Vv05s0062g01220.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0062g01220.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA10G44480.2 (Glycine max), 5'ss of exon 5
GTCAAACCTGAAATACTTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgta-gatgaaatttaacatttgtgattaccttttcttag---ttggtatgatgatgttggatctgcgttatccaaatgtccaagtagaggttgagtttgtgggg
|||||||||||| | ||||||||||| || ||||| ||| |||||||||  ||  |||||   |||||| ||      ||   | |  |||||      |||||    |  | ||       ||  | |    ||||   ||   |   ||  |  || |  |       
GTCAAACCTGAAGTGCTTAACTGGTCTCCACGAATTATTTTACTTCATAACTTCCTGAGCATGGAGgtatgacctcccttcttaatgctgatttttcactcttaaaactcagaatccccgaattacaaccatattatggtaa-acctttgttaattttaacatacct---
















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|349820405|gb|FQ406961.1|FQ406961
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|349815347|gb|FQ400502.1|FQ400502
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|351036556|gb|FQ457269.1|FQ457269
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|351046420|gb|FQ453036.1|FQ453036
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|349811155|gb|FQ406107.1|FQ406107
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACC
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|351017429|gb|FQ435782.1|FQ435782
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAACCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|351056456|gb|FQ454317.1|FQ454317
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|349821182|gb|FQ408769.1|FQ408769
EST:     TTAACTGGTCACCGCGAATTATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|349807356|gb|FQ401348.1|FQ401348
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|351044260|gb|FQ447614.1|FQ447614
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|349817923|gb|FQ407912.1|FQ407912
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCGTAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|351033401|gb|FQ462052.1|FQ462052
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|349808011|gb|FQ402402.1|FQ402402
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|351042433|gb|FQ442900.1|FQ442900
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|349811066|gb|FQ406054.1|FQ406054
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|351037271|gb|FQ457104.1|FQ457104
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGGCTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACA
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|349824801|gb|FQ414659.1|FQ414659
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|351032228|gb|FQ460485.1|FQ460485
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|351049572|gb|FQ429194.1|FQ429194
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAGTGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|351052197|gb|FQ450767.1|FQ450767
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
EST: gi|351055664|gb|FQ452129.1|FQ452129
EST:     TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAG                         GAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT
genomic: TTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaa ... accctaacagGAATGTGACTATCTTAGAGCTATGGCGGAGCCTCTCCTTCAGATTTCCACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCAAACCTGAAATACTTAACTGGTCACCGCGAATCATTCTACTTCATAGTTTTTTGAGCTCAGAGgtagatgaaatttaacatttgtgattaccttttcttagttggtatgatgatgttggatctgcgttatccaaatgtccaagtagaggttgagtttgtgggg

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagtaga