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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTGTTATTCACAACATTGTCTTTTGGAGTAATGGCTTCACAGTGAATGATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaattcaattccatccctgaaaaaggtaaaggaaaatgctgataaaaagatgaaaatcagaagcaccaaacaaggtgctgcaacagagcagaa...

Basic information

species Vitis vinifera
transcript Vv10s0116g00210.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0116g00290.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA15G11860.1 (Glycine max), 5'ss of exon 2
GACTGTTATTCACAACATTGTCTTTTGGAGTAATGGCTTCACAGTGAATGATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggta-----attc-aattccatccctgaa---aaaggtaaaggaaaatgctgataaaaagatgaaaatca-gaagcaccaaacaaggtgctgcaacagagcagaa
| ||||| |||| |||||||| || ||||||||||| ||||| || |||||||| || |||||||| || || |||||||||||||| || ||  ||||||| ||||||     ||||  |||||||   || |    | ||||||  ||  ||    |||  || |     ||  |||    ||||     || |   |          
GGCTGTTGTTCATAACATTGTTTTCTGGAGTAATGGTTTCACTGTAAATGATGGACCATTGAGGAGTTTGGACGATCCTGAAAATGCCTCATTTTTAGAGgtgatggtattaagattctgattccattagtggatttgagggtaaaataatttggaagtaatgaggttgccttcctgaaaaggcaaatgctctgatatta----------

upper sequence: Vv10s0116g00290.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA09G01010.1 (Glycine max), 5'ss of exon 2
GACTGTTATTCACAACATTGTCTTTTGGAGTAATGGCTTCACAGTGAATGATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaattca-------attccatccctgaa---aaaggtaaaggaaaatgctgataaaaagatgaaaatca-gaagcaccaaacaaggtgctgcaacagagcagaa
| ||||| |||| |||||||| || ||||||||||| ||||| || |||||||| || |||||||| || || |||||| ||||||| || ||  ||||||| |||||| || |       |||||||   || |    | ||||||  ||  ||    |||  || |     ||  |||    | ||   | || |  |           
GGCTGTTGTTCATAACATTGTTTTCTGGAGTAATGGTTTCACTGTAAATGATGGACCATTGAGGAGTTTGGACGATCCTCAAAATGCCTCATTTTTAGAGgtgatggtatttaagattctgattccattagtggatttgagggtaaaataatttggaagtaatgaggttgccttcctgaaaaggcgaatctgatgttaga-----------

upper sequence: Vv10s0116g00290.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT4G04210.1 (Arabidopsis thaliana), 5'ss of exon 2
GACTGTTATTCACAACATTGTCTTTTGGAGTAATGGCTTCACAGTGAATGATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaattcaattccatcc--ctgaaaaaggtaaaggaaaatgctgataaaaagatgaaaatcagaagcaccaaacaaggtgctgcaacagagcagaa
| ||||| ||||||||||||| || |||  |||||| |||||  |  |||||||||| |||||||  || ||||||||||| |||||||| || || ||||| |  |   ||||  |  | |    |  |     |         |  ||||  |   ||     ||  |                                
GCCTGTTGTTCACAACATTGTTTTCTGGTCTAATGGTTTCACTATTGATGATGGTCCTTTGAGGAAATTGGATGATCCTGAGAATGCATCGTTTCTCGAGgtgaatgactttcatgtgaaactgttttgatcttttgtttttggttattgatttagttattgtgttcttatag-----------------------------

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|110712280|gb|EE089721.1|EE089721
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|110719390|gb|EE097311.1|EE097311
EST:     ATGGTCCCTTGGGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|161718180|gb|FC066004.1|FC066004
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|28962956|gb|CB341989.1|CB341989
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|110691776|gb|EE070262.1|EE070262
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|161721150|gb|FC071025.1|FC071025
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|110404190|gb|EC970252.1|EC970252
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|30251570|gb|CB969303.1|CB969303
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|110685329|gb|EE063628.1|EE063628
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|30251625|gb|CB969358.1|CB969358
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|161721790|gb|FC070153.1|FC070153
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|33403502|gb|CF209129.1|CF209129
EST:     CTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: CTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|110719961|gb|EE095536.1|EE095536
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|29785168|gb|CB341921.2|CB341921
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|110384599|gb|EC949049.1|EC949049
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|110362342|gb|EC925870.1|EC925870
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|161718887|gb|FC066370.1|FC066370
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|161713467|gb|FC063098.1|FC063098
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|33403419|gb|CF209046.1|CF209046
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|110725917|gb|EE102878.1|EE102878
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|30255050|gb|CB971497.1|CB971497
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAAGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|110711891|gb|EE088884.1|EE088884
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGANNATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|30305911|gb|CB982705.1|CB982705
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
EST: gi|110688136|gb|EE066344.1|EE066344
EST:     ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAG                         AGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG
genomic: ATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaa ... ctaaatgcagAGCATCAGAAAGTCGGAGTGTCCAAAAGAGCTTGAGCCTGCAGATAGGAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACTGTTATTCACAACATTGTCTTTTGGAGTAATGGCTTCACAGTGAATGATGGTCCCTTGAGGAGGTTAGATGATCCTGAAAATGCATCTTTCCTAGAGgtaatggtaattcaattccatccctgaaaaaggtaaaggaaaatgctgataaaaagatgaaaatcagaagcaccaaacaaggtgctgcaacagagcagaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aggaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaag