Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTGCAACACCATATCGTGTTACGTGGGACTACTACTTTTCTGCTCGAGAGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttgagttattgttttgttttgtttgggcctttcttttgacaactccatcatataagagtgaaactctcactgaccattgagcag

Basic information

species Vitis vinifera
transcript Vv01s0026g00920.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0026g00920.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA01G04400.1 (Glycine max), 5'ss of exon 2
TTTTGCAACACCATATCGTGTTACGTGGGACTACTACTTTTCTGCTCGAGAGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttgagttattgttttgttttgtttgggcctttcttttgacaactccatcatataagagtgaaactctcactgaccattgagcag-------------
|||||||||||| ||| |  |||| ||||||||||| || ||||| ||||| ||||  ||  |  |||| ||||||||||| |||||||| |||||||||||||  |     | || |||| ||||||||     | | |||| |    |   | || |      | ||||    |     | |   |               
TTTTGCAACACCTTATAGGATTACATGGGACTACTATTTCTCTGCGCGAGAACATACTTTGCAGTTTGATTCATGGGAAGAGCCTGCAGAGTTGGAATATgtattttcc--cttttctttttttttgttttctattctgttttaattttttt-taatgtggagtagcaacttcggcaaggtaatattcttaataaattatcag

upper sequence: Vv01s0026g00920.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA02G03160.1 (Glycine max), 5'ss of exon 2
TTTTGCAACACCATATCGTGTTACGTGGGACTACTACTTTTCTGCTCGAGAGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatg---------cttgagttattgtttt--gttttgtttgggcctttctttt-------gacaactccatcatataagagtgaaactctcactgaccattgagcag
 |||||||| || ||| |  |||| ||||| ||||| || ||||| ||||| ||||  ||  |  |||| ||||||||||| |||||||| |||||||||||||          ||| | || |||||||  ||| |||||    |||| ||||       ||     | |  | | ||  || | | ||||||| |    | ||   
ATTTGCAACGCCTTATAGGATTACATGGGATTACTATTTCTCTGCGCGAGAACATACTTTGAAGTTTGATTCATGGGAAGATCCTGCAGAGTTGGAATATgtattttcccttttctttatttgttgttttctgttctgttttaatcttttttttttaatgtgaagtagcaactacagaaaggtaatattctcactaaattatcag---
















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|110708417|gb|EE085938.1|EE085938
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAAGGATGCTGGGG
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
EST: gi|71859638|gb|DT008693.1|DT008693
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
EST: gi|161719352|gb|FC064843.1|FC064843
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
EST: gi|110687415|gb|EE064806.1|EE064806
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
EST: gi|18458236|gb|BM436514.1|BM436514
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCA
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCA
EST: gi|351025013|gb|FQ433430.1|FQ433430
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
EST: gi|351030083|gb|FQ430825.1|FQ430825
EST:     AGCATAAATTAGAAATTGAATCATGGGAAGGACCTGCAGAATTGGAATAT                         GTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG
genomic: AGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttga ... cattgagcagGTAAAGCAGCATGGCATCTCTGTATTTCTCATGCCATCAGGGATGCTGGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTGCAACACCATATCGTGTTACGTGGGACTACTACTTTTCTGCTCGAGAGCATAAATTAGAAATTGAATCATGGGAAGAACCTGCAGAATTGGAATATgtatgcttgagttattgttttgttttgtttgggcctttcttttgacaactccatcatataagagtgaaactctcactgaccattgagcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG