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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttttagtgcaggctgtcctttagtcaagtaaactgtaatgctttttcattgtttgatctcaccggatttatgtgattattttttttcagGGCTTGTTGTTGCATTTTTTTGCTATCTGCAGTTCTTTCCTCCTCCATATGATAATAATG

Basic information

species Vitis vinifera
transcript Vv01s0011g04160.t01
intron # 7
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|161710506|gb|FC059357.1|FC059357
EST:     GGATGACTATTGGCACCATTGGCAAGATGTGTTTGCTGGAGGTCTTCTAG                         GGCTTGTTGTTGCANNNNNNNGCTATCTGCAGTTCTTTCCTCCTCCATATG
genomic: GGATGACTATTGGCACCATTGGCAAGATGTGTTTGCTGGAGGTCTTCTAGgtttgtttta ... tttttttcagGGCTTGTTGTTGCATTTTTTTGCTATCTGCAGTTCTTTCCTCCTCCATATG
EST: gi|110364780|gb|EC928276.1|EC928276
EST:     GATGACTATTGGCACCATTGGCAAAGATGTGTTTGCTGGAGGTCTTCTAG                         GGCTTGTTGTT
genomic: GATGACTATTGGCACCATTGGCAA-GATGTGTTTGCTGGAGGTCTTCTAGgtttgtttta ... tttttttcagGGCTTGTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaatgctttttcattgtttgatctcaccggatttatgtgattattttttttcagGGCTTGTTGTTGCATTTTTTTGCTATCTGCAGTTCTTTCCTCCTCCATATGATAATAATG
                     atctcac  putative branch site (score: 3)
                                         ttattttttttc  putative PPT
                               atttatgtgattattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgttttagtgcaggctgtcctttagtcaagtaaactgtaatgctttttcattgtttgatctcaccggatttatgtgattattttttttcagGGCTTGTTGTTGCATTTTTTTGCTATCTGCAGTTCTTTCCTCCTCCATATGATAATAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC