Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctcttctcacatttatttgaaataactataaatgtcatcaatttataattatgtatggcatataatactccacctgaaattgtgaagcatatgtgtgcagCTCAAAAGGGGTTCTTACGCGTTCTTGATTTGTGGAGATCATGCTCATGGAGGATCATGCTACAAGCATCCAGATTCGTCTTGATGTTTTCTCATAGTTT

Basic information

species Vitis vinifera
transcript Vv05s0020g03430.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|110385086|gb|EC949578.1|EC949578
EST:     CTTCGACAAGCTGTGGAATATGACCCACGCCGTCGTGGCACTGTGCCAAG                         CTCAAAAGGGGTTCTGACGCGTTCTTGATTTGTGGAGATCATGCTCATGGA
genomic: CTTCGACAAGCTGTGGAATATGACCCACGCCGTCATGGCACTGTGCCAAGgtttggaatt ... atgtgtgcagCTCAAAAGGGGTTCTTACGCGTTCTTGATTTGTGGAGATCATGCTCATGGA
EST: gi|110373814|gb|EC938184.1|EC938184
EST:     CTTCGACAAGCTGTGGAATATGACCCACGCCGTCGTGGCACTGTGCCAAG                         CTCAAAAGGGGTTCTGACGCGTTCTTGATTTGTGGAGATCATGCTCATGGA
genomic: CTTCGACAAGCTGTGGAATATGACCCACGCCGTCATGGCACTGTGCCAAGgtttggaatt ... atgtgtgcagCTCAAAAGGGGTTCTTACGCGTTCTTGATTTGTGGAGATCATGCTCATGGA
EST: gi|110695035|gb|EE072588.1|EE072588
EST:     CTTCGACAAGCTGTGGAATATGACCCACGCCGTCGTGGCACTGTGCCAAG                         CTCAAAAGGGGTTCTGACGCGTTCTTGATTTGTGGAGATCATGCTCATGGA
genomic: CTTCGACAAGCTGTGGAATATGACCCACGCCGTCATGGCACTGTGCCAAGgtttggaatt ... atgtgtgcagCTCAAAAGGGGTTCTTACGCGTTCTTGATTTGTGGAGATCATGCTCATGGA
EST: gi|45771814|gb|CN007666.1|CN007666
EST:     CTTCGACAAGCTGTGGAATATGACCCACGCCGTCGTGGCACTGTGCCAAG                         CTCAAAAGGGGTTCTGACGCGTTCTTGATTTGTGGAGATCATGCTCATGGA
genomic: CTTCGACAAGCTGTGGAATATGACCCACGCCGTCATGGCACTGTGCCAAGgtttggaatt ... atgtgtgcagCTCAAAAGGGGTTCTTACGCGTTCTTGATTTGTGGAGATCATGCTCATGGA
EST: gi|30303843|gb|CB980637.1|CB980637
EST:     TTTCGACAAGCTGTGGAATATGACCCACGCCGTCGTGGCACTGTGCCAAG                         CTCAAAAGGGGTT-TTGACGCGTTCTTGATTTGTGGAGATCATGCTCATGG
genomic: CTTCGACAAGCTGTGGAATATGACCCACGCCGTCATGGCACTGTGCCAAGgtttggaatt ... atgtgtgcagCTCAAAAGGGGTTCTT-ACGCGTTCTTGATTTGTGGAGATCATGCTCATGG
EST: gi|45771503|gb|CN007355.1|CN007355
EST:     TGGCACTGTGCCAAG                         CTCAAAAGGGGTT-TTGACGCGTTCTTGATTTGTGGAGATCATGCTCATGG
genomic: TGGCACTGTGCCAAGgtttggaatt ... atgtgtgcagCTCAAAAGGGGTTCTT-ACGCGTTCTTGATTTGTGGAGATCATGCTCATGG
EST: gi|110386630|gb|EC951244.1|EC951244
EST:     CTTCGACAAGCTGTGGAATATGACCCACGCCGTCGTGGCACTGTGCCAAG                         CTCAAAAGGGGTTCTGACGCGTTCTTGATTTGTGGAGATCATGCTCATGGA
genomic: CTTCGACAAGCTGTGGAATATGACCCACGCCGTCATGGCACTGTGCCAAGgtttggaatt ... atgtgtgcagCTCAAAAGGGGTTCTTACGCGTTCTTGATTTGTGGAGATCATGCTCATGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattatgtatggcatataatactccacctgaaattgtgaagcatatgtgtgcagCTCAAAAGGGGTTCTTACGCGTTCTTGATTTGTGGAGATCATGCTCATGGAGGATCATGCTACAAGCATCCAGATTCGTCTTGATGTTTTCTCATAGTTT
              atataatact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctcttctcacatttatttgaaataactataaatgtcatcaatttataattatgtatggcatataatactccacctgaaattgtgaagcatatgtgtgcagCTCAAAAGGGGTTCTTACGCGTTCTTGATTTGTGGAGATCATGCTCATGGAGGATCATGCTACAAGCATCCAGATTCGTCTTGATGTTTTCTCATAGTTT

- - -ctcacat
- - - - - - - - - gaaataa
- - - - - - - - - - - - - - - - - tcatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - -tgtatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaagca