Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atggactattgatggtttcttatttctgttattattcttctttgtttttcttcatgcaattgattgcacaatttttaaagatgaaaatttcttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCACTGTCTTAGCTGTTGTTAACCTATCAAAGGGTCATCCCCACCATGAAGA

Basic information

species Vitis vinifera
transcript Vv00s0386g00020.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|32268997|gb|CD718156.1|CD718156
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGACGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTTGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|110690978|gb|EE068552.1|EE068552
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|71871240|gb|DT020295.1|DT020295
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|110417446|gb|EC983500.1|EC983500
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGACGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|83276596|gb|DV940604.1|DV940604
EST:     GGCTGCCCCCAAGAGGAATTATTTTTCCTTTGCTGGCCACGATGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|32458839|gb|CD800013.1|CD800013
EST:     GCTGGCCACGACGATGCCC                         GTGAGACTGTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATG
genomic: GCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGAC--TGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATG
EST: gi|37187260|gb|CF606613.1|CF606613
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGACGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTTGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|32458914|gb|CD800088.1|CD800088
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGACGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|77584521|gb|DV221325.1|DV221325
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|110393966|gb|EC959576.1|EC959576
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|110370087|gb|EC934266.1|EC934266
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|71871038|gb|DT020093.1|DT020093
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGACGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTTGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|110409559|gb|EC975225.1|EC975225
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|87584584|gb|DY473697.1|DY473697
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|71871011|gb|DT020066.1|DT020066
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGACGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTTGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA
EST: gi|71868103|gb|DT017158.1|DT017158
EST:     GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGACGATGCCC                         GTGAGACTGCAAAATGGGAGAAGATTACTTACCTTGGCATTGCTACATGCA
genomic: GGCTGCCCCCAAGAGGAACTATTCTTCCTCTGCTGGCCACGATGATGCCCgtaatttctt ... cttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcttcatgcaattgattgcacaatttttaaagatgaaaatttcttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCACTGTCTTAGCTGTTGTTAACCTATCAAAGGGTCATCCCCACCATGAAGA
            aattgat  putative branch site (score: 4)
                                          tttcttccttc  putative PPT
                        aatttttaaagatgaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atggactattgatggtttcttatttctgttattattcttctttgtttttcttcatgcaattgattgcacaatttttaaagatgaaaatttcttccttcagGTGAGACTGCAAAATGGGAGAAGATTACTTACCTAGGCATTGCTACATGCACTGTCTTAGCTGTTGTTAACCTATCAAAGGGTCATCCCCACCATGAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - -tgatggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgattgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgaaaa