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'   		15  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacagcttatattttctacatgtttagggaatgtaatttttgttggttctctgtccaaccacagtgcttactccctttttgtttcagATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACTGAGAACAGCAGACAGAAAGAAGTACTCCAG

Basic information

species Vitis vinifera
transcript Vv14s0068g00720.t01
intron # 12
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|71861153|gb|DT010208.1|DT010208
EST:     CTCATCTTCTTGCGAAGGCTGAGCAATCAGCAAAACAACAGAAATTGAAA                         ATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACT
genomic: CTCATCTTCTTGCGAAGGCTGAGCAATCAGCAAAACAACAGAAATTGAAAgtaacagctt ... tttgtttcagATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACT
EST: gi|161721331|gb|FC070058.1|FC070058
EST:     AAACAACAGAAATTGAAA                         ATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACT
genomic: AAACAACAGAAATTGAAAgtaacagctt ... tttgtttcagATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACT
EST: gi|110731966|gb|EE106841.1|EE106841
EST:     CTCATCTTCTTGCGAAGGCTGAGCAATCAGCAAAACAACAGAAATTGAAA                         ATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACT
genomic: CTCATCTTCTTGCGAAGGCTGAGCAATCAGCAAAACAACAGAAATTGAAAgtaacagctt ... tttgtttcagATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACT
EST: gi|30304038|gb|CB980832.1|CB980832
EST:     CTCATCTTCTTGCGAAGGCTGAGCAATCAGCAAAACAACAGAAATTGAAA                         ATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACT
genomic: CTCATCTTCTTGCGAAGGCTGAGCAATCAGCAAAACAACAGAAATTGAAAgtaacagctt ... tttgtttcagATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACT
EST: gi|71857364|gb|DT006419.1|DT006419
EST:     CTCATCTTCTTGCGAAGGCTGAGCAATCAGCAAAACAACAGAAATTGAAA                         ATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACT
genomic: CTCATCTTCTTGCGAAGGCTGAGCAATCAGCAAAACAACAGAAATTGAAAgtaacagctt ... tttgtttcagATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACT
EST: gi|30304101|gb|CB980895.1|CB980895
EST:     CTCATCTTCTTGCGAAGGCTGAGCAATCAGCAAAACAACAGAAATTGAAA                         ATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACT
genomic: CTCATCTTCTTGCGAAGGCTGAGCAATCAGCAAAACAACAGAAATTGAAAgtaacagctt ... tttgtttcagATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaatttttgttggttctctgtccaaccacagtgcttactccctttttgtttcagATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACTGAGAACAGCAGACAGAAAGAAGTACTCCAG
                                tgcttac  putative branch site (score: 2)
                                tgcttactcccttttt  CT-rich tract
                                           tttttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacagcttatattttctacatgtttagggaatgtaatttttgttggttctctgtccaaccacagtgcttactccctttttgtttcagATATGGGAGAATTATGTTGAGGGTCAAGAAATTGCTAATGCTTCAGGCACTGAGAACAGCAGACAGAAAGAAGTACTCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT