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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatttgcgacaaaaaaccgagcatctatgatttagatttgtgtaaacctttgaagtcgagaaacaaaatttgtaactgttgtttcttgttctttggactcatttacatttgggcttttagGCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTTTTCGCAACTGAAGCTTTACTTGCGCAACATGGGAAGTCAATCAAGGGTT

Basic information

species Vitis vinifera
transcript Vv16s0039g02750.t01
intron # 4
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|110383828|gb|EC948229.1|EC948229
EST:     CGGCCGTAGTGACTGGAAAGCCAATA                         GCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCACCTGGTCGAGGTGTT-TT
genomic: CGGCCGTAGTGACTGGAAAGCCAATAgtaagtattt ... gggcttttagGCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
EST: gi|30251187|gb|CB968920.1|CB968920
EST:     ACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATA                         GCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
genomic: ACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagtattt ... gggcttttagGCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
EST: gi|161720824|gb|FC069589.1|FC069589
EST:     ACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATA                         GCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
genomic: ACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagtattt ... gggcttttagGCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
EST: gi|161712921|gb|FC062394.1|FC062394
EST:     ACTCAAAATTCCATGGGCACTCACCGGCCGTAGTGACTGGAAAGCCAATA                         GCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
genomic: ACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagtattt ... gggcttttagGCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
EST: gi|156737272|gb|EV241386.1|EV241386
EST:     ACTCAAAATTCCATTGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATA                         GCTCTTGGTGGTTCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT
genomic: ACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagtattt ... gggcttttagGCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatttgtaactgttgtttcttgttctttggactcatttacatttgggcttttagGCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTTTTCGCAACTGAAGCTTTACTTGCGCAACATGGGAAGTCAATCAAGGGTT
    ttgtaac  putative branch site (score: 2)
                                                ctttt  putative PPT
                                   atttacattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtatttgcgacaaaaaaccgagcatctatgatttagatttgtgtaaacctttgaagtcgagaaacaaaatttgtaactgttgtttcttgttctttggactcatttacatttgggcttttagGCTCTTGGTGGATCCCTCGGTAGGGAGGCTGCAACTGGTCGAGGTGTTGTTTTCGCAACTGAAGCTTTACTTGCGCAACATGGGAAGTCAATCAAGGGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC