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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgaattacattccttaaatttcatgtaagcaaatgtgggttacattgactgtcaaactgatgtctgttaactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG

Basic information

species Vitis vinifera
transcript Vv01s0244g00070.t01
intron # 3
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|351031196|gb|FQ445023.1|FQ445023
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|351022412|gb|FQ445187.1|FQ445187
EST:     ACCCCAAAGATACTGGAGATCAACGGGAGGCTTCTGCCCTTCGTGATGAA                         ATTGATATGCTACA
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACA
EST: gi|351046750|gb|FQ454360.1|FQ454360
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|352798824|gb|FQ478459.1|FQ478459
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|352768718|gb|FQ467930.1|FQ467930
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|351024338|gb|FQ423761.1|FQ423761
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|351052036|gb|FQ455329.1|FQ455329
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|351037721|gb|FQ464162.1|FQ464162
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|351036830|gb|FQ459352.1|FQ459352
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|351031918|gb|FQ460175.1|FQ460175
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|349821835|gb|FQ412990.1|FQ412990
EST:     ACCCAAAAGATACTGGAGATCAGCGGGCGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|351037441|gb|FQ460640.1|FQ460640
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|351047980|gb|FQ441152.1|FQ441152
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|161717169|gb|FC066567.1|FC066567
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|351052469|gb|FQ452502.1|FQ452502
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
EST: gi|351055097|gb|FQ440436.1|FQ440436
EST:     ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA                         GTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
genomic: ACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAAgtttgtgaat ... aactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtaagcaaatgtgggttacattgactgtcaaactgatgtctgttaactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG
                                         tgttaac  putative branch site (score: 2)
                ttacatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtgaattacattccttaaatttcatgtaagcaaatgtgggttacattgactgtcaaactgatgtctgttaactctgcagGTTGATATGCTACAAGAAGAGAATGAGAACATTCTTGACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA