Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agaaggggagagagagagagagtacttgtgtacagtgtgagctgcattaattctaatggtttgttctttttgttttttctgcttgtttttatggttgcagGAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGAGAGTGCAAGGGCAATCACAGGAAACCCACTTCTCTCCTCACAACCTGGC

Basic information

species Vitis vinifera
transcript Vv04s0008g01160.t01
intron # 2
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|71888843|gb|DT037898.1|DT037898
EST:     ATTTGTGGCACAAGAGAGTATAGATGTGATTGTGGAACCCTTTTCTCCAG                         GAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGA
genomic: ATTTGTGGCACAAGAGAGTATAGATGTGATTGTGGAACCCTTTTCTCCAGgtaattcaaa ... atggttgcagGAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGA
EST: gi|71883970|gb|DT033025.1|DT033025
EST:     ATTTGTGGCACAAGAGAGTATAGATGTGATTGTGGAACCCTTTTCTCCAG                         GAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGA
genomic: ATTTGTGGCACAAGAGAGTATAGATGTGATTGTGGAACCCTTTTCTCCAGgtaattcaaa ... atggttgcagGAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGA
EST: gi|71885175|gb|DT034230.1|DT034230
EST:     ATTTGTGGCACAAGAGAGTATAGATGTGATTGTGGAACCCTTTTCTCCAG                         GAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGA
genomic: ATTTGTGGCACAAGAGAGTATAGATGTGATTGTGGAACCCTTTTCTCCAGgtaattcaaa ... atggttgcagGAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGA
EST: gi|71888455|gb|DT037510.1|DT037510
EST:     ATTTGTGGCACAAGAGAGTATAGATGTGATTGTGGAACCCTTTTCTCCAG                         GAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGA
genomic: ATTTGTGGCACAAGAGAGTATAGATGTGATTGTGGAACCCTTTTCTCCAGgtaattcaaa ... atggttgcagGAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGA
EST: gi|71888058|gb|DT037113.1|DT037113
EST:     ATTTGTGGCACAAGAGAGTATAGATGTGATTGTGGAACCCTTTTCTCCAG                         GAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGA
genomic: ATTTGTGGCACAAGAGAGTATAGATGTGATTGTGGAACCCTTTTCTCCAGgtaattcaaa ... atggttgcagGAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGA
EST: gi|161720387|gb|FC069842.1|FC069842
EST:     ATTTGTGGCACAAGAGAGTATAGATGTGATTGTGGAACCCTTTTCTCCAG                         GAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGA
genomic: ATTTGTGGCACAAGAGAGTATAGATGTGATTGTGGAACCCTTTTCTCCAGgtaattcaaa ... atggttgcagGAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attaattctaatggtttgttctttttgttttttctgcttgtttttatggttgcagGAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGAGAGTGCAAGGGCAATCACAGGAAACCCACTTCTCTCCTCACAACCTGGC
     ttctaat  putative branch site (score: 2)
                  ttctttttgttttttc  putative PPT
                  ttctttttgtttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agaaggggagagagagagagagtacttgtgtacagtgtgagctgcattaattctaatggtttgttctttttgttttttctgcttgtttttatggttgcagGAGGGACAGTTTCATCACTCACAGGGCCTTCTGTGATGCTTTAGCAGAAGAGAGTGCAAGGGCAATCACAGGAAACCCACTTCTCTCCTCACAACCTGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- -aggggaga
- - - - agagaga
- - - - - - - - - - - - - - - - - - - - -ctgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - ctaatgg