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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttggaaaatcattgaatctacttccatgacactcgcatgactcagagttgaactatttgaactgaaatttttgtgaaagtaacagtatgctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGTCGAACAGCATGAACAGGTGGATGGAAATGGCCCTGACAATGCTGAAAAA

Basic information

species Vitis vinifera
transcript Vv14s0006g02010.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|110391364|gb|EC956333.1|EC956333
EST:     TCGCCATCTTTCATCTTCGATCTG                         CTGCTGTCTGCTAGGGTGGTGCAAGGACAACATGTCAGGCATGGAGAATGT
genomic: TCGCCATCTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|34416304|gb|CF415058.1|CF415058
EST:     CTTTCATCTTCGATCTG                         CTGCTGTCTGCTAGGGTGGTGCAAGGACAACATGTCAGGCATGGAGAATGT
genomic: CTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|110374310|gb|EC939449.1|EC939449
EST:     AGATTTGGGATTTCGCCATCTTTCATCTTCGATCTG                         CTGCTGTCTGCTAGGGTGGTGCAAGGACAACATGTCAGGCATGGAGAATGT
genomic: AGATTTGGGATTTCGCCATCTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|110419753|gb|EC986002.1|EC986002
EST:     CCCTAACCACCTAGATTTGGGATTTCGCCATCTTTCATCTTCGATCTG                         CTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
genomic: CCCTAACCACCTAGATTTGGGATTTCGCCATCTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|110727608|gb|EE104559.1|EE104559
EST:     CCCTAACCACCTAGATTTGGGATTTCGCCATCTTTCATCTTCGATCTG                         CTGCTGTTTGCTAGGGTGGTGCAAGGACAACATGTCAGGCATGGAGAATGT
genomic: CCCTAACCACCTAGATTTGGGATTTCGCCATCTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|110730829|gb|EE108353.1|EE108353
EST:     CTAGATTTGGGATTTCGCCATCTTTCATCTTCGATCTG                         CTGCTGTTTGCTAGGGTGGTGCAAGGACAACATGTCAGGCATGGAGAATGT
genomic: CTAGATTTGGGATTTCGCCATCTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|110382977|gb|EC947311.1|EC947311
EST:     TTCGCCATCTTTCATCTTCGATCTG                         CTGCTGTCTGCTAGGGTGGTGCAAGGACAACATGTCAGGCATGGAGAATGT
genomic: TTCGCCATCTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|110377450|gb|EC942515.1|EC942515
EST:     TGGGATTTCGCCATCTTTCATCTTCGATCTG                         CTGCTGTCTGCTAGGGTGGTGCAAGGACAACATGTCAGGCATGGAGAATGT
genomic: TGGGATTTCGCCATCTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|110420660|gb|EC986936.1|EC986936
EST:     CCCTAACCACCTAGATTTGGGATTTCGCCATCTTTCATCTTCGATCTG                         CTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
genomic: CCCTAACCACCTAGATTTGGGATTTCGCCATCTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|110691516|gb|EE069706.1|EE069706
EST:     CTAGATTTGGGATTTCGCCATCTTTCATCTTCGATCTG                         CTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
genomic: CTAGATTTGGGATTTCGCCATCTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|110687340|gb|EE064675.1|EE064675
EST:     CCTAGATTTGTTATTTCCCCATCTTTCATCTTCGATCTG                         CTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
genomic: CCTAGATTTGGGATTTCGCCATCTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|110687110|gb|EE064235.1|EE064235
EST:     CTAGATTTGGGATTTCGCCATCTTTCATCTTCGATCTG                         CTGCTGTCTGCTAGGGTGGTGCAAGGACAACATGTCAGGCATGGAGAATGT
genomic: CTAGATTTGGGATTTCGCCATCTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|110379202|gb|EC944382.1|EC944382
EST:     GGATTTCGCCATCTTTCATCTTCGATCTG                         CTGCTGTCTGCTAGGGTGGTGCAAGGACAACATGTCAGGCATGGAGAATGT
genomic: GGATTTCGCCATCTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|110426370|gb|EC992776.1|EC992776
EST:     TTCGCCATCTTTCATCTTCGATCTG                         CTGCTGTCTGCTAGGGTGGTGCGAGGACAACATGTCAGGCATGGAGAATGT
genomic: TTCGCCATCTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT
EST: gi|110378112|gb|EC943228.1|EC943228
EST:     CTTTCATCTTCGATCTG                         CTGCTGTCTGCTAGGGTGGTGCAAGGACAACATGTCAGGCATGGAGAATGT
genomic: CTTTCATCTTCGATCTGgtaagaaaac ... gctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agagttgaactatttgaactgaaatttttgtgaaagtaacagtatgctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGTCGAACAGCATGAACAGGTGGATGGAAATGGCCCTGACAATGCTGAAAAA
                                 aagtaac  putative branch site (score: 2)
                     aaatttttgtgaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgttggaaaatcattgaatctacttccatgacactcgcatgactcagagttgaactatttgaactgaaatttttgtgaaagtaacagtatgctattgcagCTGCTGTCTGCTAGGGTGGTGCAAGGACAACATATCAGGCATGGAGAATGTCGAACAGCATGAACAGGTGGATGGAAATGGCCCTGACAATGCTGAAAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - ggaaaat
- - - - - - - - - - - - -ccatgac
- - - - - - - - - - - - - - - - - - gcatgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aactgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagtaa