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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atctcactgctgttttttctatttgtgtgtgagcttggtatctcatggatattgactacaactgaaactcgatccttttccttctggtctcctttggcagTATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCACCCCAGTATATCGATCCATATGAACTTCTGGAAGATGAAAGGATTTCTC

Basic information

species Vitis vinifera
transcript Vv03s0088g00400.t01
intron # 3
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|30134271|gb|CB919609.1|CB919609
EST:     TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTT                         TATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA
genomic: TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTTgtaagctccc ... cctttggcagTATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA
EST: gi|32269456|gb|CD718615.1|CD718615
EST:     TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTT                         TATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA
genomic: TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTTgtaagctccc ... cctttggcagTATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA
EST: gi|30130543|gb|CB915882.1|CB915882
EST:     TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTT                         TATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA
genomic: TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTTgtaagctccc ... cctttggcagTATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA
EST: gi|110383842|gb|EC948243.1|EC948243
EST:     TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTT                         TATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA
genomic: TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTTgtaagctccc ... cctttggcagTATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA
EST: gi|110687557|gb|EE065101.1|EE065101
EST:     TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTT                         TATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA
genomic: TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTTgtaagctccc ... cctttggcagTATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA
EST: gi|110377814|gb|EC942903.1|EC942903
EST:     TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTT                         TATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA
genomic: TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTTgtaagctccc ... cctttggcagTATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA
EST: gi|30125183|gb|CB910522.1|CB910522
EST:     TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTT                         TATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA
genomic: TTGGACCTTTGATCCTCATAACTGTTGCATTCTTCTGTGCTCTGTACTTTgtaagctccc ... cctttggcagTATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggatattgactacaactgaaactcgatccttttccttctggtctcctttggcagTATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCACCCCAGTATATCGATCCATATGAACTTCTGGAAGATGAAAGGATTTCTC
    tattgac  putative branch site (score: 2)
                      ctcgatccttttcctt  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atctcactgctgttttttctatttgtgtgtgagcttggtatctcatggatattgactacaactgaaactcgatccttttccttctggtctcctttggcagTATTTTGGGCCGACTTTTGTCCATGACGGAAGCAAAACACCTATAATGCCACCCCAGTATATCGATCCATATGAACTTCTGGAAGATGAAAGGATTTCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - -actgctg
- - - - - - - - - - - - gtgtgtg
- - - - - - - - - - - - - - - -agcttgg
- - - - - - - - - - - - - - - - - - - - -ctcatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ctacaac