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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatatcatatctttaattcccccaaaaagaaagaacacatatataaatagaagtatccagttctacttatcaaaaataaaataaaaatagaagtatccagttctagcacatcaaattattgtgtgttataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATCTTATACTTGAGAGAAATCAATGATGCTGACAAGCTTATAGATGTAATAA

Basic information

species Vitis vinifera
transcript Vv08s0007g03610.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g03610.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA0169S00210.1 (Glycine max), 3'ss of exon 5
gtaaatatcatatctttaattcccccaaaaagaaagaacacatatataaatagaagtatccagttctacttatcaaaaataaaataaaaatagaagtatccagttctagcacatcaa-attattgtgtgttataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATCTTATACTTGAGAGAAATCAATGATGCTGACAAGCTTATAGATGTAATAA
                                                     ||| || |  || |   ||  | | ||     |   || |   |   |  ||    || |  ||   || |   | ||||  || ||||| |||||| | || || ||| ||||||||||||||||||| ||||| ||||| || ||||| ||  |  |||||||||||||  |    || | ||| |
---------------------------------------------------gtaaggatgc--ttgtggatagtagagatgttgcattcattg---ttctcgtttgcctcatactaatgctaata-atattatt-ttccagGTTATAAGGCTGACAGATTTTGGTGTAGAAGGAGCTGATGCGAAAAACATCTTTTATTTGAGGGAGGTTGATGATGCTGACAAATTGTATGAGGCAATCA
















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|71884694|gb|DT033749.1|DT033749
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|71857656|gb|DT006711.1|DT006711
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|71859550|gb|DT008605.1|DT008605
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|110723311|gb|EE100477.1|EE100477
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|71856545|gb|DT005600.1|DT005600
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|71872394|gb|DT021449.1|DT021449
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|161718345|gb|FC064769.1|FC064769
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|110380711|gb|EC945999.1|EC945999
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|110728455|gb|EE104038.1|EE104038
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|161707787|gb|FC056440.1|FC056440
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|71856042|gb|DT005097.1|DT005097
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|71859937|gb|DT008992.1|DT008992
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTGATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|71858668|gb|DT007723.1|DT007723
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|161713126|gb|FC062484.1|FC062484
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|33403613|gb|CF209240.1|CF209240
EST:     ACTGGTTC-ACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: ACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|71860428|gb|DT009483.1|DT009483
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTGATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|71861795|gb|DT010850.1|DT010850
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTGATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|71887849|gb|DT036904.1|DT036904
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|71862830|gb|DT011885.1|DT011885
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTGATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|351014525|gb|FQ437527.1|FQ437527
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|161711333|gb|FC060384.1|FC060384
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|349827863|gb|FQ422731.1|FQ422731
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|71860964|gb|DT010019.1|DT010019
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTGATAAGGTTAACTGACTTTCGTGTAG
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAG
EST: gi|71863493|gb|DT012548.1|DT012548
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTGATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
EST: gi|71857725|gb|DT006780.1|DT006780
EST:     CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACG                         GTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC
genomic: CTGGAGAAACCTTTAAGTATCACATCTTGATTATTGCAACTGGTTCAACGgtaaatatca ... ataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaatagaagtatccagttctagcacatcaaattattgtgtgttataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATCTTATACTTGAGAGAAATCAATGATGCTGACAAGCTTATAGATGTAATAA
                              aaattattgtgtgtta  TA-rich tract
















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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatatcatatctttaattcccccaaaaagaaagaacacatatataaatagaagtatccagttctacttatcaaaaataaaataaaaatagaagtatccagttctagcacatcaaattattgtgtgttataattgcagGTCATAAGGTTAACTGACTTTCGTGTAGAAGGAGCTGATGCAAAAAATATCTTATACTTGAGAGAAATCAATGATGCTGACAAGCTTATAGATGTAATAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT