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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagttaaaataataatattaatttttttttgtattgactagtattgcatgtgctttttagttgatatgactaatagtttcaattgcttcatatcatccagTACGGCGGTTATGGCTGAAGTTGAGGAAAATTTTGGTGAACCTGACATGGATCAACTGCCTGAGGATTCGCAGCCTCAACAAAAACGAGGACGTGATGAT

Basic information

species Vitis vinifera
transcript Vv14s0081g00440.t01
intron # 2
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|71864338|gb|DT013393.1|DT013393
EST:     CCTTTTGCAGCCTTGCTCTTCTGGTATTGCTTCTTCTCATCAATACTTGA                         CACGGCGGTTATGGCTGAAGTTGAGGAAAATTTTGGTGAACCTGACATGGA
genomic: CCATTTGCAGCCTTGCTCTTCTGGTATTGCTTCTTCTCATCAATACTTGAgtaagtacgt ... tatcatccagTACGGCGGTTATGGCTGAAGTTGAGGAAAATTTTGGTGAACCTGACATGGA
EST: gi|161718668|gb|FC067950.1|FC067950
EST:     CCTTTTGCAGCCTTGCTCTTCTGGTATTGCTTCTTCTCATCAATACTTGA                         G
genomic: CCATTTGCAGCCTTGCTCTTCTGGTATTGCTTCTTCTCATCAATACTTGAgtaagtacgt ... tatcatccag-
EST: gi|161718668|gb|FC067950.1|FC067950
EST:     CCTTTTGCAGCCTTGCTCTTCTGGTATTGCTTCTTCTCATCAATACTTGA                         G
genomic: CCATTTGCAGCCTTGCTCTTCTGGTATTGCTTCTTCTCATCAATACTTGAgtaagtacgt ... tatcatccag-
EST: gi|110356545|gb|EC919451.1|EC919451
EST:     CCTTTTGCAGCCTTGCTCTTCTGGTATTGCTTCTTCTCATCAATACTTGA                         CACGGCGGTTATGGCTGAAGTTGAGGAAAATTTTGGTGAACCTGACATGGA
genomic: CCATTTGCAGCCTTGCTCTTCTGGTATTGCTTCTTCTCATCAATACTTGAgtaagtacgt ... tatcatccagTACGGCGGTTATGGCTGAAGTTGAGGAAAATTTTGGTGAACCTGACATGGA
EST: gi|71862998|gb|DT012053.1|DT012053
EST:     CCTTTTGCAGCCTTGCTCTTCTGGTATTGCTTCTTCTCATCAATACTTGA                         CACGGCGGTTATGGCTGAAGTTGAGGAAAATTTTGGTGAACCTGACATGGA
genomic: CCATTTGCAGCCTTGCTCTTCTGGTATTGCTTCTTCTCATCAATACTTGAgtaagtacgt ... tatcatccagTACGGCGGTTATGGCTGAAGTTGAGGAAAATTTTGGTGAACCTGACATGGA
EST: gi|110732776|gb|EE108358.1|EE108358
EST:     CCATTTGCAGCCTTGCTCTTCTGGTATTGCTTCTTCTCATCAATACTTGA                         TACGGCGGTTATGGCTGAAGTTGAGGAAAATTTTGGTGAACCTGACATGGA
genomic: CCATTTGCAGCCTTGCTCTTCTGGTATTGCTTCTTCTCATCAATACTTGAgtaagtacgt ... tatcatccagTACGGCGGTTATGGCTGAAGTTGAGGAAAATTTTGGTGAACCTGACATGGA
EST: gi|110382710|gb|EC947028.1|EC947028
EST:     CTCTTCTGGTATTGCTTCTTCTCATCAATACTTGA                         CACGGCGGTTATGGCTGAAGTTGAGGAAAATTTTGGTGAACCTGACATGGA
genomic: CTCTTCTGGTATTGCTTCTTCTCATCAATACTTGAgtaagtacgt ... tatcatccagTACGGCGGTTATGGCTGAAGTTGAGGAAAATTTTGGTGAACCTGACATGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatgtgctttttagttgatatgactaatagtttcaattgcttcatatcatccagTACGGCGGTTATGGCTGAAGTTGAGGAAAATTTTGGTGAACCTGACATGGATCAACTGCCTGAGGATTCGCAGCCTCAACAAAAACGAGGACGTGATGAT
                      gactaat  putative branch site (score: 2)
        tttttagttgatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagttaaaataataatattaatttttttttgtattgactagtattgcatgtgctttttagttgatatgactaatagtttcaattgcttcatatcatccagTACGGCGGTTATGGCTGAAGTTGAGGAAAATTTTGGTGAACCTGACATGGATCAACTGCCTGAGGATTCGCAGCCTCAACAAAAACGAGGACGTGATGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - -aaaataa
- - - - - - - - - - - - - - - - - - - - - -ttgcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttca