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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatattgatttattgtatatgagcattgtatgtttttatttatttaaaatatctatattttaattttttttaacatgttttctctttggtcaacttctagGATTTAGCACTTGATGCTACCACAACTGTTGGTGTGGACCTTGGTCAAGGATTGCGAGAAGTGGACATTAAGAAGTACATAAAGGTTGAGAAAGTCCCTG

Basic information

species Vitis vinifera
transcript Vv17s0000g08170.t01
intron # 8
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|161714994|gb|FC063310.1|FC063310
EST:     ACAAAATTTACTGGTCAATTTGGGGATCTAATTGCT                         GATTTAGCACTTGATGCTACCACAACTGTTGGTGTGGACCTTGGTCAAGGA
genomic: ACAAAATTTACTGGTCAATTTGGGGATCTAATTGCTgtaagtattt ... caacttctagGATTTAGCACTTGATGCTACCACAACTGTTGGTGTGGACCTTGGTCAAGGA
EST: gi|352773628|gb|FQ472410.1|FQ472410
EST:     AGAGTTGTATAGGTACAAAATTTACTGGTCAATTTGGGGATCTAATTGCT                         GATTTAGCACTTGATGCTACCACAACTGTTGGTGTGGACCTTGGTCAAGGA
genomic: AGAGTTGTATAGGTACAAAATTTACTGGTCAATTTGGGGATCTAATTGCTgtaagtattt ... caacttctagGATTTAGCACTTGATGCTACCACAACTGTTGGTGTGGACCTTGGTCAAGGA
EST: gi|352764588|gb|FQ472945.1|FQ472945
EST:     AGAGTTGTATAGGTACAAAATTTACTGGTCAATTTGGGGATCTAATTGCT                         GATTTAGCACTTGATGCTACCACAACTGTTGGTGTGGACCTTGGTCAAGGA
genomic: AGAGTTGTATAGGTACAAAATTTACTGGTCAATTTGGGGATCTAATTGCTgtaagtattt ... caacttctagGATTTAGCACTTGATGCTACCACAACTGTTGGTGTGGACCTTGGTCAAGGA
EST: gi|352769725|gb|FQ468653.1|FQ468653
EST:     AGAGTTGTATAGGTACAAAATTTACTGGTCAATTTGGGGATCTAATTGCT                         GATTTAGCACTTGATGCTACCACAACTGTTGGTGTGGACCTTGGTCAAGGA
genomic: AGAGTTGTATAGGTACAAAATTTACTGGTCAATTTGGGGATCTAATTGCTgtaagtattt ... caacttctagGATTTAGCACTTGATGCTACCACAACTGTTGGTGTGGACCTTGGTCAAGGA
EST: gi|161719245|gb|FC064810.1|FC064810
EST:     AGAGTTGTATAGGTACAAAATTTACTGGTCAATTTGGGGATCTAATTGCT                         GATTTAGCACTTGATGCTACCACAACTGTTGGTGTGGACCTTGGTCAAGGA
genomic: AGAGTTGTATAGGTACAAAATTTACTGGTCAATTTGGGGATCTAATTGCTgtaagtattt ... caacttctagGATTTAGCACTTGATGCTACCACAACTGTTGGTGTGGACCTTGGTCAAGGA
EST: gi|71857432|gb|DT006487.1|DT006487
EST:     AGAGTTGTATAGGTACAAAATTTACTGGTCAATTTGGGGATCTAATTGCT                         GATTTAGCACTTGATGCTACCACAACTGT
genomic: AGAGTTGTATAGGTACAAAATTTACTGGTCAATTTGGGGATCTAATTGCTgtaagtattt ... caacttctagGATTTAGCACTTGATGCTACCACAACTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaatatctatattttaattttttttaacatgttttctctttggtcaacttctagGATTTAGCACTTGATGCTACCACAACTGTTGGTGTGGACCTTGGTCAAGGATTGCGAGAAGTGGACATTAAGAAGTACATAAAGGTTGAGAAAGTCCCTG
                      ttttaac  putative branch site (score: 2)
                                ttttctctttggtc  putative PPT
     atctatattttaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatattgatttattgtatatgagcattgtatgtttttatttatttaaaatatctatattttaattttttttaacatgttttctctttggtcaacttctagGATTTAGCACTTGATGCTACCACAACTGTTGGTGTGGACCTTGGTCAAGGATTGCGAGAAGTGGACATTAAGAAGTACATAAAGGTTGAGAAAGTCCCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - tgtatgt
- - - - - - - - - - - - - - - - - - - - - - -aaaatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatgtt