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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcttctttactataaatgaggctctgaactactcaattgacctgtacaagtcgcacccaccattttggcttttatatttacattgaagatttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG

Basic information

species Vitis vinifera
transcript Vv04s0008g00650.t01
intron # 5
splice site 3'
intron type U2

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|156737847|gb|EV241968.1|EV241968
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|71863241|gb|DT012296.1|DT012296
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|71865061|gb|DT014116.1|DT014116
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|161720394|gb|FC070186.1|FC070186
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAACATATCCACGCTATTGTG                         GTGTATCCTATCTTGAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAG
EST: gi|110722833|gb|EE099455.1|EE099455
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|30129707|gb|CB915046.1|CB915046
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|161721247|gb|FC070753.1|FC070753
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|71857680|gb|DT006735.1|DT006735
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGA
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAGA
EST: gi|161717589|gb|FC066263.1|FC066263
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|161714427|gb|FC063853.1|FC063853
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|110388273|gb|EC953007.1|EC953007
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|26267080|gb|CA818143.1|CA818143
EST:     GGATGACTACATGTCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|71883347|gb|DT032402.1|DT032402
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|71864703|gb|DT013758.1|DT013758
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|110365546|gb|EC928709.1|EC928709
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|71859768|gb|DT008823.1|DT008823
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|161717170|gb|FC066568.1|FC066568
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|26265140|gb|CA816203.1|CA816203
EST:     GGATGACTACATGTCATTTGTTGGCCTCCTAGCAGATCCCCGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|110722784|gb|EE099350.1|EE099350
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAAGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|110385784|gb|EC950339.1|EC950339
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|110724849|gb|EE101037.1|EE101037
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|161715652|gb|FC066797.1|FC066797
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|71881323|gb|DT030378.1|DT030378
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAG
EST: gi|110720108|gb|EE095742.1|EE095742
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAAGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|34542987|gb|CF511219.1|CF511219
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|161719650|gb|FC067994.1|FC067994
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|161721651|gb|FC069781.1|FC069781
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAA
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|33409202|gb|CF214829.1|CF214829
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
EST: gi|110367167|gb|EC931093.1|EC931093
EST:     GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTG                         GTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
genomic: GGATGACTACATATCATTTGTTGGCCTCCTAGCAGATCCACGCTATTGTGgtattaattc ... ttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaagtcgcacccaccattttggcttttatatttacattgaagatttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG
                        ttttatatttacattg  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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcttctttactataaatgaggctctgaactactcaattgacctgtacaagtcgcacccaccattttggcttttatatttacattgaagatttgaatgcagGTGTATCCTATCTTGAGAAGCAAGAAGTTCGTGACCTCTTAAGGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - -aaatgag
- - - - - - - - - - -ctctgaa
- - - - - - - - - - - - - - - - - - - -acctgta
- - - - - - - - - - - - - - - - - - - - - - - - - - gcaccca