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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATACCTGCTACTCTTATAGCAGACTCTGCTGCAGCTGCATTAATGCAGGCTGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagttcagcaataggtttgtctcatttgttttttgataccaacagcatgcatgacagatcccatctaaatatgcag

Basic information

species Vitis vinifera
transcript Vv11s0016g00830.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g00830.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: AT2G05830.3 (Arabidopsis thaliana), 5'ss of exon 7
ATACCTGCTACTCTTATAGCAGACTCTGCTGCAGCTGCATTAATGCAGGCTGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagttcagc---aataggtttgtctc---------atttgttttttgataccaacagcatgcatgacagatcccatctaaata-tgcag
|| ||||| ||||| || |||||||| |||||||||||| | ||| | | ||| || || |||| |||||| |||||||| ||||| || ||| ||||||||||       || |    |||  |  || |          || || ||  | ||  |   | ||    | |   |   |||  | ||| | |||
ATCCCTGCAACTCTCATTGCAGACTCAGCTGCAGCTGCACTGATGAAAGATGGTCGTGTTGATGGTGTCATCGTTGGAGCTGATCGTGTGGCTTCAAATGgtacactcaaacaccttagataaatccgttttctctcacaaatctgattccttatgactgaatcacttcttaaccaattcattgatatactccag
















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|110374656|gb|EC939575.1|EC939575
EST:     AGATCGCGTAGCTGCAAATG                         GTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
genomic: AGATCGCGTAGCTGCAAATGgtacttcagt ... aaatatgcagGTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
EST: gi|34543372|gb|CF511604.1|CF511604
EST:     TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATG                         GTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
genomic: TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagt ... aaatatgcagGTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
EST: gi|30133085|gb|CB918424.1|CB918424
EST:     TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATG                         GTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
genomic: TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagt ... aaatatgcagGTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
EST: gi|110428947|gb|EC995431.1|EC995431
EST:     TGTTGGAGCAGATCGCGTAGCTGCAAATG                         GTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
genomic: TGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagt ... aaatatgcagGTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
EST: gi|110409927|gb|EC975602.1|EC975602
EST:     TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATG                         GTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
genomic: TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagt ... aaatatgcagGTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
EST: gi|110363814|gb|EC927433.1|EC927433
EST:     TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATG                         GTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
genomic: TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagt ... aaatatgcagGTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
EST: gi|110391575|gb|EC956560.1|EC956560
EST:     TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATG                         GTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
genomic: TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagt ... aaatatgcagGTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
EST: gi|30252173|gb|CB969724.1|CB969724
EST:     TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATG                         GTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
genomic: TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagt ... aaatatgcagGTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
EST: gi|34543287|gb|CF511519.1|CF511519
EST:     TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATG                         GTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
genomic: TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagt ... aaatatgcagGTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
EST: gi|110420049|gb|EC986310.1|EC986310
EST:     TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATG                         GTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
genomic: TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagt ... aaatatgcagGTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
EST: gi|110366059|gb|EC929706.1|EC929706
EST:     TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATG                         GTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC
genomic: TGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagt ... aaatatgcagGTGATACTGCTAACAAGATTGGGACCTATTCTCTGGCCTTAAGTGCAAAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATACCTGCTACTCTTATAGCAGACTCTGCTGCAGCTGCATTAATGCAGGCTGGACGCGTGGATGCTGTCATTGTTGGAGCAGATCGCGTAGCTGCAAATGgtacttcagttcagcaataggtttgtctcatttgttttttgataccaacagcatgcatgacagatcccatctaaatatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC