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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggagtcatctccgcaactctcacttgctttctgctatatacattcctgattcaagaataattgagggttttttcttttttttctttttctaaatcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACATGAGTGTGCTGGTATCATAGAAGAAGTTGGGAGTGAAGTGAAGAATCTTG

Basic information

species Vitis vinifera
transcript Vv16s0100g00290.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|71884490|gb|DT033545.1|DT033545
EST:     TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAG                         ACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
genomic: TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAGgtggagtcat ... atcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
EST: gi|37188548|gb|CF607897.1|CF607897
EST:     TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAG                         ACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
genomic: TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAGgtggagtcat ... atcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
EST: gi|110702722|gb|EE078942.1|EE078942
EST:     TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAG                         ACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
genomic: TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAGgtggagtcat ... atcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
EST: gi|71890669|gb|DT039724.1|DT039724
EST:     TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAG                         ACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGGCAT
genomic: TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAGgtggagtcat ... atcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
EST: gi|110711540|gb|EE088133.1|EE088133
EST:     TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAG                         ACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
genomic: TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAGgtggagtcat ... atcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
EST: gi|110712208|gb|EE089569.1|EE089569
EST:     TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAG                         ACAATGAGGTGCGCAAATTTTATTGTGAAGAAACCAATGGTGATAGGACAT
genomic: TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAGgtggagtcat ... atcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
EST: gi|26257801|gb|CA808864.1|CA808864
EST:     TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAG                         ACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
genomic: TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAGgtggagtcat ... atcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
EST: gi|110712986|gb|EE088512.1|EE088512
EST:     TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAG                         ACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
genomic: TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAGgtggagtcat ... atcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
EST: gi|37189545|gb|CF608894.1|CF608894
EST:     TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAG                         ACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
genomic: TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAGgtggagtcat ... atcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
EST: gi|46917777|gb|CN547106.1|CN547106
EST:     TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAG                         ACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
genomic: TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAGgtggagtcat ... atcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
EST: gi|110713392|gb|EE089275.1|EE089275
EST:     TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAG                         ACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
genomic: TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAGgtggagtcat ... atcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
EST: gi|71884639|gb|DT033694.1|DT033694
EST:     TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAG                         ACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT
genomic: TTAGGATCAAAGCTGTAGGGATATGTGGAAGTGATGTTCATCACTTCAAGgtggagtcat ... atcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattcaagaataattgagggttttttcttttttttctttttctaaatcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACATGAGTGTGCTGGTATCATAGAAGAAGTTGGGAGTGAAGTGAAGAATCTTG
                                       ttctaaa  putative branch site (score: 2)
                    ttttttcttttttttc  CT-rich tract
                    ttttttcttttttttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtggagtcatctccgcaactctcacttgctttctgctatatacattcctgattcaagaataattgagggttttttcttttttttctttttctaaatcttatcagACAATGAGGTGCGCAAATTTTATTGTGAAGAAGCCAATGGTGATAGGACATGAGTGTGCTGGTATCATAGAAGAAGTTGGGAGTGAAGTGAAGAATCTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA