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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aggaactgtctattgtcattaatgatcagaatatccattaatctcttctgggtcagaattttattttctgtatattgatatcatggttcttgttttgcagGCCGAGAAAGCATCTTGGAACTCCATTGGAATATTTAAACTATCTAACATTTCTGGGAAGAAACGTGAGCTGGTGCCTACCACCAAAAGTACCGGCGATG

Basic information

species Vitis vinifera
transcript Vv11s0016g02270.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|351027106|gb|FQ439967.1|FQ439967
EST:     TGGTGCGCTCTGAATTTCCCCACACTGCTTATTTTGTCGCAGGCACTCAG                         GCCGCGAAAGCATCTTGGAACTCCATTGGAATATTTAAACTATCTAACATT
genomic: TGGTGCGCTCTGAATTTCCCCACACTGCTTATTTTGTCGCAGGCACTCAGgtgagggagt ... tgttttgcagGCCGAGAAAGCATCTTGGAACTCCATTGGAATATTTAAACTATCTAACATT
EST: gi|351017861|gb|FQ436214.1|FQ436214
EST:     TGGTGCGCTCTGAATTTCCCCACACTGCTTATTTTGTCGCAGGCACTCAG                         GCCGAGAAAGCATCTTGGAACTCCATTGGAATATTTAAACTATCTAACATT
genomic: TGGTGCGCTCTGAATTTCCCCACACTGCTTATTTTGTCGCAGGCACTCAGgtgagggagt ... tgttttgcagGCCGAGAAAGCATCTTGGAACTCCATTGGAATATTTAAACTATCTAACATT
EST: gi|351012692|gb|FQ430255.1|FQ430255
EST:     TGGTGCGCTCTGAATTTCCCCACACTGCTTATTTTGTCGCAGGCACTCAG                         GCCGAGAAAGCATCTTGGAACTCCATTGGAATATTTAAACTATCTAACATT
genomic: TGGTGCGCTCTGAATTTCCCCACACTGCTTATTTTGTCGCAGGCACTCAGgtgagggagt ... tgttttgcagGCCGAGAAAGCATCTTGGAACTCCATTGGAATATTTAAACTATCTAACATT
EST: gi|349828396|gb|FQ417138.1|FQ417138
EST:     TGGTGCGCTCTGAATTTCCCCACACTGCTTATTTTGTCGCAGGCACTCAG                         GCCGAGAAAGCATCTTGGAACTCCATTGGAATATTTAAACTATCTAACATT
genomic: TGGTGCGCTCTGAATTTCCCCACACTGCTTATTTTGTCGCAGGCACTCAGgtgagggagt ... tgttttgcagGCCGAGAAAGCATCTTGGAACTCCATTGGAATATTTAAACTATCTAACATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgggtcagaattttattttctgtatattgatatcatggttcttgttttgcagGCCGAGAAAGCATCTTGGAACTCCATTGGAATATTTAAACTATCTAACATTTCTGGGAAGAAACGTGAGCTGGTGCCTACCACCAAAAGTACCGGCGATG
                           tattgat  putative branch site (score: 3)
                                         ttcttgtttt  putative PPT
           aattttattttctgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aggaactgtctattgtcattaatgatcagaatatccattaatctcttctgggtcagaattttattttctgtatattgatatcatggttcttgttttgcagGCCGAGAAAGCATCTTGGAACTCCATTGGAATATTTAAACTATCTAACATTTCTGGGAAGAAACGTGAGCTGGTGCCTACCACCAAAAGTACCGGCGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - ccattaa
- - - - - - - - - - - - - - - - - - - - -tctcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catggtt