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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacattttcacagaattcatttgaatgtgcatacaggatctaatttttcatgggcattaattgtggataagcatggcagGTTCAGGTTTCTGAAGGTACGAGATGTTGAAGCAACTTCTCGTCTGCAACTAGGTAGCATTGACCTCTATGCAAGAAGCAGTTAAGAGCCTGCAGTTGAG

Basic information

species Vitis vinifera
transcript Vv14s0030g01930.t01
intron # 16
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|30303819|gb|CB980613.1|CB980613
EST:     CGTAAAACATTTAAGATTAATTCATTGGGTCTTTCATCCAATGCATTCAG                         GTTCAGGTTTCTGATGGTACGAGATGTTGAAGCAACTTCTCGTCTGCAACT
genomic: CGTAAAACATTTAAGATTAATTCAGTGGGTCTTTCATCCAATGCATTCAGgtaaacattt ... agcatggcagGTTCAGGTTTCTGAAGGTACGAGATGTTGAAGCAACTTCTCGTCTGCAACT
EST: gi|56409651|gb|CX017903.1|CX017903
EST:     CGTAAAACATTTAAGATTAATTCATTGGGTCTTTCATCCAATGCATTCAG                         GTTCAGGTTTCTGA
genomic: CGTAAAACATTTAAGATTAATTCAGTGGGTCTTTCATCCAATGCATTCAGgtaaacattt ... agcatggcagGTTCAGGTTTCTGA
EST: gi|352765232|gb|FQ465929.1|FQ465929
EST:     CGTAAAACATTTAAGATTAATTCAGTGGGTCTTTCATCCAATGCATTCAG                         GTTCAGGTTTCTGAAGGTACGAGATGTTGAAGCAACTTTTCGTCTGCAACT
genomic: CGTAAAACATTTAAGATTAATTCAGTGGGTCTTTCATCCAATGCATTCAGgtaaacattt ... agcatggcagGTTCAGGTTTCTGAAGGTACGAGATGTTGAAGCAACTTCTCGTCTGCAACT
EST: gi|30303754|gb|CB980548.1|CB980548
EST:     CGTAAAACATTTAAGATTAATTCATTGGGTCTTTCATCCAATGCATTCAG                         GTTCAGGTTTCTGATGGTACGAGATGTTGAAGCAACTTCTCGTCTGCAACT
genomic: CGTAAAACATTTAAGATTAATTCAGTGGGTCTTTCATCCAATGCATTCAGgtaaacattt ... agcatggcagGTTCAGGTTTCTGAAGGTACGAGATGTTGAAGCAACTTCTCGTCTGCAACT
EST: gi|30303525|gb|CB980319.1|CB980319
EST:     CGTAAAACATTTAAGATTAATTCAGTGGGTCTTTCATCCAATGCATTCAG                         GTTCAGGTTTCTGAAGGTACGAGATGTTGAAGCAACTTCTCGTCTGCAACT
genomic: CGTAAAACATTTAAGATTAATTCAGTGGGTCTTTCATCCAATGCATTCAGgtaaacattt ... agcatggcagGTTCAGGTTTCTGAAGGTACGAGATGTTGAAGCAACTTCTCGTCTGCAACT
EST: gi|110365350|gb|EC928201.1|EC928201
EST:     CGTAAAACATTTAAGATTAATTCATTGGGTCTTTCATCCAATGCATTCAG                         GTTCAGGTTTCTGAAGGTACGAGATGTTGAAGCAACTTCTCGTCTGCAACT
genomic: CGTAAAACATTTAAGATTAATTCAGTGGGTCTTTCATCCAATGCATTCAGgtaaacattt ... agcatggcagGTTCAGGTTTCTGAAGGTACGAGATGTTGAAGCAACTTCTCGTCTGCAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtgcatacaggatctaatttttcatgggcattaattgtggataagcatggcagGTTCAGGTTTCTGAAGGTACGAGATGTTGAAGCAACTTCTCGTCTGCAACTAGGTAGCATTGACCTCTATGCAAGAAGCAGTTAAGAGCCTGCAGTTGAG
                              cattaat  putative branch site (score: 3)
             atctaatttttcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaacattttcacagaattcatttgaatgtgcatacaggatctaatttttcatgggcattaattgtggataagcatggcagGTTCAGGTTTCTGAAGGTACGAGATGTTGAAGCAACTTCTCGTCTGCAACTAGGTAGCATTGACCTCTATGCAAGAAGCAGTTAAGAGCCTGCAGTTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG