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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggattgggaacagatttctgtttcattgtttccttttgtcctgcaactccagcaccaattataagcaactgatgcaaattgagttcattttcttgacagGAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCTCAGCAGTGATGCTTGCAAGGAATAAGCTTCTCAGTGGCTGCTTGGAGCA

Basic information

species Vitis vinifera
transcript Vv09s0002g01560.t01
intron # 14
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|46910096|gb|CN545471.1|CN545471
EST:     TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCT                         GAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
genomic: TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCTgtaagaaaat ... ttcttgacagGAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
EST: gi|110688772|gb|EE067708.1|EE067708
EST:     TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCT                         GAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
genomic: TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCTgtaagaaaat ... ttcttgacagGAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
EST: gi|29785322|gb|CB342196.2|CB342196
EST:     TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCT                         GAAATGCCATACAAAGGAAG-GATCNTTTAGTTGGTTGATTGATCATATTC
genomic: TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCTgtaagaaaat ... ttcttgacagGAAATGCCATACAAAGGAAGAGATT-TTTAGTTGGTTGATTGATCATATTC
EST: gi|71889230|gb|DT038285.1|DT038285
EST:     TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCT                         GAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
genomic: TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCTgtaagaaaat ... ttcttgacagGAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
EST: gi|71882373|gb|DT031428.1|DT031428
EST:     TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCT                         GAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
genomic: TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCTgtaagaaaat ... ttcttgacagGAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
EST: gi|33402674|gb|CF208301.1|CF208301
EST:     TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCT                         GAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
genomic: TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCTgtaagaaaat ... ttcttgacagGAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
EST: gi|30253108|gb|CB970659.1|CB970659
EST:     TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCT                         GAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
genomic: TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCTgtaagaaaat ... ttcttgacagGAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
EST: gi|71887408|gb|DT036463.1|DT036463
EST:     TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCT                         GAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
genomic: TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCTgtaagaaaat ... ttcttgacagGAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
EST: gi|161707060|gb|FC055937.1|FC055937
EST:     TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCT                         GAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT
genomic: TGTTTTTTGGACACCCGAGGCAGGTCTTGTACATGCCAGGCTATCCCCCTgtaagaaaat ... ttcttgacagGAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactccagcaccaattataagcaactgatgcaaattgagttcattttcttgacagGAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCTCAGCAGTGATGCTTGCAAGGAATAAGCTTCTCAGTGGCTGCTTGGAGCA
                      aactgat  putative branch site (score: 3)
                                       ttcattttctt  putative PPT
            aattataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggattgggaacagatttctgtttcattgtttccttttgtcctgcaactccagcaccaattataagcaactgatgcaaattgagttcattttcttgacagGAAATGCCATACAAAGGAAGAGATTTTTAGTTGGTTGATTGATCATATTCTCAGCAGTGATGCTTGCAAGGAATAAGCTTCTCAGTGGCTGCTTGGAGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
-ggattgg
- - - - gaacaga
- - - - - - - - - ctgtttc
- - - - - - - - - - - - - -tgtttcc
- - - - - - - - - - - - - - - - - - - -tcctgca
- - - - - - - - - - - - - - - - - - - - - - - - - cagcacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataagcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatgcaa