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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gccttaaagtctgaaagaagtagggaacatgtgtggatactgagcaagtttgggttaaggatactgaatttaagttttgccattttatgtgtggaaacagAGTACTGCGAGCGATATGCAAAGAAGGAGAACATTACCAATGAAAGACTTGAAGAGGACAGTGAAGATGAGGACTTCAGTGATGGAAAAAGCGCATCAAG

Basic information

species Vitis vinifera
transcript Vv17s0000g07960.t01
intron # 7
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|32271062|gb|CD720221.1|CD720221
EST:     GCATNCA-TGATGATGAAGAACAAAGATCAATATGAGAAAAAAGTAAAAG                         AGTACTGCGAGCGATATGCAAA
genomic: GCAT-CAATGATGATGAAGAACAAAGATCAATATGAGAAAAAAGTAAAAGgtaaaagttt ... gtggaaacagAGTACTGCGAGCGATATGCAAA
EST: gi|32272372|gb|CD721531.1|CD721531
EST:     GCATCAATGATGATGAAGAACAAAAGATCA-TATGAGAAAAAAGTAAAAG                         AGTACTGCGAGCGATATGC
genomic: GCATCAATGATGATGAAGAACAAA-GATCAATATGAGAAAAAAGTAAAAGgtaaaagttt ... gtggaaacagAGTACTGCGAGCGATATGC
EST: gi|87584867|gb|DY473862.1|DY473862
EST:     AGCATCAATGATGATGAAGAACAAAGATCAATATGAGAAAAAAGTAAAAG                         AGTACTGCGAGCGATATGCAAAGAAGGAGAACATTACCAATGAAAGACTTG
genomic: AGCATCAATGATGATGAAGAACAAAGATCAATATGAGAAAAAAGTAAAAGgtaaaagttt ... gtggaaacagAGTACTGCGAGCGATATGCAAAGAAGGAGAACATTACCAATGAAAGACTTG
EST: gi|161712684|gb|FC062256.1|FC062256
EST:     AGCATCAATGATGATGAAGAACAAAGATCAATATGAGAAAAAAGTAAAAG                         AGTACTGCGAGCGATATGCAAAGAAGGAGAACATTACCAATGAAAGACTTG
genomic: AGCATCAATGATGATGAAGAACAAAGATCAATATGAGAAAAAAGTAAAAGgtaaaagttt ... gtggaaacagAGTACTGCGAGCGATATGCAAAGAAGGAGAACATTACCAATGAAAGACTTG
EST: gi|30327528|gb|CD010790.1|CD010790
EST:     GCATCAATGATGATGAAGAACAAAGAATCA-TATGAGAAAAAAGTAAAAG                         AGTACTGCGAGCGATATGC
genomic: GCATCAATGATGATGAAGAACAAAGA-TCAATATGAGAAAAAAGTAAAAGgtaaaagttt ... gtggaaacagAGTACTGCGAGCGATATGC
EST: gi|32271578|gb|CD720737.1|CD720737
EST:     AGCATCAATGATGATGAAGAACAAAGATCAATATGAGAAAAAAGTAAAAG                         AGTACTGCGAGCGATATGC
genomic: AGCATCAATGATGATGAAGAACAAAGATCAATATGAGAAAAAAGTAAAAGgtaaaagttt ... gtggaaacagAGTACTGCGAGCGATATGC
EST: gi|32272363|gb|CD721522.1|CD721522
EST:     GCATCAATGATGATGAAGAAACAA-GATCAATATGAGAAAAAAGTAAAAG                         AGTACTGCGAGCGATATGC
genomic: GCATCAATGATGATGAAGAA-CAAAGATCAATATGAGAAAAAAGTAAAAGgtaaaagttt ... gtggaaacagAGTACTGCGAGCGATATGC
EST: gi|30324813|gb|CD008075.1|CD008075
EST:     GCATCAATGATGATGAAGAACAAAGATNCA-TATGAGAAAAAAGTAAAAG                         AGTACTGCGAGCGATATG
genomic: GCATCAATGATGATGAAGAACAAAGAT-CAATATGAGAAAAAAGTAAAAGgtaaaagttt ... gtggaaacagAGTACTGCGAGCGATATG
EST: gi|27586958|gb|CB009653.1|CB009653
EST:     AGCATCAATGATGATGAAGAACAAAGATCAATATGAGAAAAAAGTAAAAG                         AGTACTGCGAGCGATATGCAAAGAAGGAGAACATTACCAATGAAAGACTTG
genomic: AGCATCAATGATGATGAAGAACAAAGATCAATATGAGAAAAAAGTAAAAGgtaaaagttt ... gtggaaacagAGTACTGCGAGCGATATGCAAAGAAGGAGAACATTACCAATGAAAGACTTG
EST: gi|32270967|gb|CD720126.1|CD720126
EST:     AGCATCAATGATGATGAAGAACAA-GATCAATATGAGAAAAA-GTAAAAG                         AGTACTGCGAGCGATATGC
genomic: AGCATCAATGATGATGAAGAACAAAGATCAATATGAGAAAAAAGTAAAAGgtaaaagttt ... gtggaaacagAGTACTGCGAGCGATATGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtttgggttaaggatactgaatttaagttttgccattttatgtgtggaaacagAGTACTGCGAGCGATATGCAAAGAAGGAGAACATTACCAATGAAAGACTTGAAGAGGACAGTGAAGATGAGGACTTCAGTGATGGAAAAAGCGCATCAAG
                   tgaatttaagtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gccttaaagtctgaaagaagtagggaacatgtgtggatactgagcaagtttgggttaaggatactgaatttaagttttgccattttatgtgtggaaacagAGTACTGCGAGCGATATGCAAAGAAGGAGAACATTACCAATGAAAGACTTGAAGAGGACAGTGAAGATGAGGACTTCAGTGATGGAAAAAGCGCATCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - gaaagaa
- - - - - - - - - - - - - -catgtgt