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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttggagtctgtatacacatgtttgttttttatgtataaggaacctactggacttgcttttgacatatgtgtaaatgcctaattggagataacttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG

Basic information

species Vitis vinifera
transcript Vv10s0071g01010.t01
intron # 1
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|349812519|gb|FQ407138.1|FQ407138
EST:     TCAGGACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTANATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|349820205|gb|FQ406881.1|FQ406881
EST:     TCAGGACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351032690|gb|FQ462404.1|FQ462404
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|349825872|gb|FQ423167.1|FQ423167
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351032891|gb|FQ461780.1|FQ461780
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351054350|gb|FQ450433.1|FQ450433
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351039559|gb|FQ461426.1|FQ461426
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351057261|gb|FQ450968.1|FQ450968
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351032201|gb|FQ460458.1|FQ460458
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|349828246|gb|FQ416199.1|FQ416199
EST:     CAGAACTGTTCAAAAATTCAACCTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: CAGAACTGTTCAAAAATTCAAC-TCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351016102|gb|FQ432057.1|FQ432057
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351037007|gb|FQ459529.1|FQ459529
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|349817008|gb|FQ399755.1|FQ399755
EST:     TCAGGACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351043992|gb|FQ431423.1|FQ431423
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351054450|gb|FQ450533.1|FQ450533
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTANATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351032987|gb|FQ461876.1|FQ461876
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351052517|gb|FQ456365.1|FQ456365
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351042636|gb|FQ451051.1|FQ451051
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351054188|gb|FQ450270.1|FQ450270
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|349813226|gb|FQ411466.1|FQ411466
EST:     TCAGGACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCCTGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|352798379|gb|FQ480404.1|FQ480404
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351047688|gb|FQ455085.1|FQ455085
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|351054230|gb|FQ450312.1|FQ450312
EST:     TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
EST: gi|349819032|gb|FQ411727.1|FQ411727
EST:     TCAGGACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGTAAATTG                         GTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT
genomic: TCAGAACTGTTCAAAAATTCAACTCCCCAAAGCAGAAACGCCGCAAATTGgtacctgttt ... acttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actggacttgcttttgacatatgtgtaaatgcctaattggagataacttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG
                                        agataac  putative branch site (score: 3)
                                              cttcttc  CT-rich tract
                       tgtaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttggagtctgtatacacatgtttgttttttatgtataaggaacctactggacttgcttttgacatatgtgtaaatgcctaattggagataacttcttcagGTTAATAAAAATGCCATGCTATGCAAATCAATAGATGAGGTATTTCTGAATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - -acacatg
- - - - - - - - - - - - - - - - - ataagga
- - - - - - - - - - - - - - - - - - - - - cctactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgcc