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'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaagtggcaatgatggcattttagttattttatttatttctgtggtgttatttgagtagatgttgtggttcaccattgatggttttagtgttgctttattttagGGGAAGTAGAAGGAATTCCTGCACTGGTATCAAGTTTGGATCCAACAAATAAAAAGCGGTTACTAAAACAATGCTCTGCAGGATCAGGTGATCTCATATT

Basic information

species Vitis vinifera
transcript Vv03s0088g00500.t01
intron # 9
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|351048178|gb|FQ442148.1|FQ442148
EST:     AATCAAATCTGGAGCAAAGGGTTTGCCCTTCCTGAAGGTCTTGGATGATG                         GGGAAGTAGAAGGAATTCCTGCACTGGTATCAAGTTTGGATCCAACAAATA
genomic: AATCAAATCTGGAGCAAAGGGTTTGCCCTTCCTGAAGGTCTTGGATGATGgtaaaaagtg ... tttattttagGGGAAGTAGAAGGAATTCCTGCACTGGTATCAAGTTTGGATCCAACAAATA
EST: gi|352786206|gb|FQ478817.1|FQ478817
EST:     AATCAAATCTGGAGCAAAGGGTTTGCCCTTCCTGAAGGTCTTGGATGACG                         GGGAAGTAGAAGGAATTCCTGCACTGGTATCAAGTTTGGATCCAACAAATA
genomic: AATCAAATCTGGAGCAAAGGGTTTGCCCTTCCTGAAGGTCTTGGATGATGgtaaaaagtg ... tttattttagGGGAAGTAGAAGGAATTCCTGCACTGGTATCAAGTTTGGATCCAACAAATA
EST: gi|351046227|gb|FQ442605.1|FQ442605
EST:     AATCAAATCTGGAGCAAAGGGTTTGCCCTTCCTGAAGGTCTTGGATGATG                         GGGAAGTAGAAGGAATTCCTGCACTGGTATCAAGTTTGGATCCAACAAATA
genomic: AATCAAATCTGGAGCAAAGGGTTTGCCCTTCCTGAAGGTCTTGGATGATGgtaaaaagtg ... tttattttagGGGAAGTAGAAGGAATTCCTGCACTGGTATCAAGTTTGGATCCAACAAATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgagtagatgttgtggttcaccattgatggttttagtgttgctttattttagGGGAAGTAGAAGGAATTCCTGCACTGGTATCAAGTTTGGATCCAACAAATAAAAAGCGGTTACTAAAACAATGCTCTGCAGGATCAGGTGATCTCATATT
                        cattgat  putative branch site (score: 4)
                                            ctttatttt  putative PPT
                                             tttatttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaaagtggcaatgatggcattttagttattttatttatttctgtggtgttatttgagtagatgttgtggttcaccattgatggttttagtgttgctttattttagGGGAAGTAGAAGGAATTCCTGCACTGGTATCAAGTTTGGATCCAACAAATAAAAAGCGGTTACTAAAACAATGCTCTGCAGGATCAGGTGATCTCATATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG