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

GTACATTTATGACTGGGAGTGAACATAATGATGAGTTCTTCACGGATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgttatgtactttaagcatttgtatgtgtttgggattagatttgttatgcaccattttttaagcatcttcagtccttgagatcgtttctgctgacaaacag

Basic information

species Vitis vinifera
transcript Vv13s0019g04190.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g04190.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA10G35560.2 (Glycine max), 5'ss of exon 10
GTACATTTATGACTGGGAGTGAACATAATGATGAGTTCTTCACGGATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgttatgtactttaagcatttgtatgtgtttgggattagatttgttatgcaccattttt-taagcatcttcagtcc-ttgagatcgtttctgctgacaaacag
| || ||| ||||||||||||||||||||||||||||||  |  |||| |||||||   |  || |||||||| |||||||||||||||||||||||| ||||  ||| || |||  | |  |   |  |||    ||||| ||   |  | || |    |    || ||   |    | | ||  | | |  |||||| |||
GCACCTTTTTGACTGGGAGTGAACATAATGATGAGTTCTATATAGATGAACATGGAAACACAAGAACAAGAACAAATCGCTCTGGTGGGATACAGgtatttgtgctgttctgtaattactaat---tagttgtttctagatatgcactatatcagtcacatgtctatatttgttttacttatattatctgtattgacaatcag

upper sequence: Vv13s0019g04190.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA20G31980.1 (Glycine max), 5'ss of exon 10
GTACATTTATGACTGGGAGTGAACATAATGATGAGTTCTTCACGGATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgttatgtactttaagcatttgtatgtgtttgggattagatttgttatg-caccattttttaagcatcttcagtccttgagatcgtttctgctgacaaacag
| || ||| |||||||||||||||| |||||||||||||  |  |||| |||||||   |  || |||||||| |||||||||||||||||||||||| ||||  ||| || |||  | |  |  || |||     ||||| ||   || ||      |||    || |    | ||| | ||  | | |  |||||| |||
GCACCTTTTTGACTGGGAGTGAACACAATGATGAGTTCTATATAGATGAACATGGAAACACAAGAACAAGAACAAATCGCTCTGGTGGGATACAGgtatttgtgctgttctataattactaattagtttttt---ctagatatgcactgacagtcacatttctatatttgttttactt-atattatctgtattgacaatcag
















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|110372418|gb|EC936581.1|EC936581
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|30326726|gb|CD009988.1|CD009988
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAATGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|156737328|gb|EV241442.1|EV241442
EST:     ATGCGCATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|32249612|gb|CD715431.1|CD715431
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAATGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|30131232|gb|CB916571.1|CB916571
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAATGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|32247169|gb|CD712988.1|CD712988
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAATGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|352785536|gb|FQ475539.1|FQ475539
EST:     ATGCACATGGGCGAATCAGGACAAGAATTATTCGCTCTGGTGGGGTACAG                         GGCGGAATATCAAACGGGGAAATCATAAACATAGGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|110395213|gb|EC960849.1|EC960849
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|29783210|gb|CB349240.2|CB349240
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|352776660|gb|FQ465458.1|FQ465458
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|30325548|gb|CD008810.1|CD008810
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAATGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|110703011|gb|EE079483.1|EE079483
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|32248621|gb|CD714440.1|CD714440
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAATGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|110378991|gb|EC944156.1|EC944156
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|352777955|gb|FQ467008.1|FQ467008
EST:     ATGCACATGGAGGAATCAGGACAAGAACTAATCGCTTTGGTGGGATACAG                         GGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|110371972|gb|EC936111.1|EC936111
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|156737322|gb|EV241443.1|EV241443
EST:     ATGCGCATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|29783264|gb|CB349323.2|CB349323
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
EST: gi|30324763|gb|CD008025.1|CD008025
EST:     ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAG                         GGCGGAATATCAAATGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA
genomic: ATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgtta ... tgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTACATTTATGACTGGGAGTGAACATAATGATGAGTTCTTCACGGATGCACATGGACGAATCAGGACAAGAACTAATCGCTCTGGTGGGATACAGgtacttgttatgtactttaagcatttgtatgtgtttgggattagatttgttatgcaccattttttaagcatcttcagtccttgagatcgtttctgctgacaaacag

- - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG