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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtataattaaatgaagtcatcatttccactgaaaagataggtgcctgaaccttttgttgatttgagttttctactattttgacccggaagctttttgcagGTCAAGGAAACTTCATACACTCGGCTGTGCAGCACCAAGAAGATCCTGACTGTAAATGGACTATTTCCTGGGCCACCTATGTATATGCGCAGGGGAGATC

Basic information

species Vitis vinifera
transcript Vv18s0164g00100.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|110710242|gb|EE086416.1|EE086416
EST:     TGCTCACATTCTGCATGGCTGCCAAGCATATCGCTACTGTTGATTGGATT                         GTCAAGGAAACTTCATACACTCGGCTGTGCAGCACCAAGAAGATCCTGACT
genomic: TGCTCACATTCTGCATGGCTGCCAAGCATATCGCTACTGTTGATTGGATTgtaagtatat ... ctttttgcagGTCAAGGAAACTTCATACACTCGGCTGTGCAGCACCAAGAAGATCCTGACT
EST: gi|37184033|gb|CF603387.1|CF603387
EST:     TGCTCACATTCTGCATGGCTGCCAAGCATATCGCTACTGTTGATTGGATT                         GTCAAGGAAACTTCATACACTCGGCTGTGCAGCACCAAGAAGATCCTGACT
genomic: TGCTCACATTCTGCATGGCTGCCAAGCATATCGCTACTGTTGATTGGATTgtaagtatat ... ctttttgcagGTCAAGGAAACTTCATACACTCGGCTGTGCAGCACCAAGAAGATCCTGACT
EST: gi|110707628|gb|EE084245.1|EE084245
EST:     TGCTCACATTCTGCATGGCTGCCAAGCATATCGCTACTGTTGATTGGATT                         GTCAAGGAAACTTCATACACTCGGCTGTGCAGCACCAAGAAGATCCTGACT
genomic: TGCTCACATTCTGCATGGCTGCCAAGCATATCGCTACTGTTGATTGGATTgtaagtatat ... ctttttgcagGTCAAGGAAACTTCATACACTCGGCTGTGCAGCACCAAGAAGATCCTGACT
EST: gi|110700922|gb|EE077999.1|EE077999
EST:     TGCTCACATTCTGCATGGCTGCCAAGCATATCGCTACTGTTGATTGGATT                         GTCAAGGAAACTTCATACACTCGGCTGTGCAGCACCAAGAAGATCCTGACT
genomic: TGCTCACATTCTGCATGGCTGCCAAGCATATCGCTACTGTTGATTGGATTgtaagtatat ... ctttttgcagGTCAAGGAAACTTCATACACTCGGCTGTGCAGCACCAAGAAGATCCTGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaccttttgttgatttgagttttctactattttgacccggaagctttttgcagGTCAAGGAAACTTCATACACTCGGCTGTGCAGCACCAAGAAGATCCTGACTGTAAATGGACTATTTCCTGGGCCACCTATGTATATGCGCAGGGGAGATC
                               ttttgac  putative branch site (score: 3)
                                             ctttttgc  putative PPT
                     ttttctactatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtataattaaatgaagtcatcatttccactgaaaagataggtgcctgaaccttttgttgatttgagttttctactattttgacccggaagctttttgcagGTCAAGGAAACTTCATACACTCGGCTGTGCAGCACCAAGAAGATCCTGACTGTAAATGGACTATTTCCTGGGCCACCTATGTATATGCGCAGGGGAGATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - aattaaa
- - - - - -tgaagtc
- - - - - - - - - - catttcc
- - - - - - - - - - - - - - - gaaaaga
- - - - - - - - - - - - - - - - - - - - - - ctgaacc