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'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACATCCACAGCAGAATCAGGATCTGAAGCTGAAGATATTGCTTCCCCAAAAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggtttttgactttttaacttgtgattactttattatttaattttattgactttgaatttatgttgtttccaatgatgtttttggaggatgccgattc...

Basic information

species Vitis vinifera
transcript Vv03s0038g04470.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA12G04460.1 (Glycine max), 5'ss of exon 10
TACATCCACAGCAGAATCAGGATCTGAAGCTGAAGATATTGCTTCCCCAAAAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggtttttgactttttaacttgtgattactttattatttaattttattgactttgaatttatgttgtttccaatgatgtttttggaggatgccgattc--
 ||||||||||| |||||||| || |||||||||||||| ||||| |||||| |||| ||||| || ||||| ||| ||||||| ||||| || || |||||| || || ||  ||  ||  ||| |   ||  ||  ||| | || |         | |||   ||  |      |  ||     ||  |     | ||  
CACATCCACAGCTGAATCAGGGTCAGAAGCTGAAGATATAGCTTCTCCAAAAGTGACGAAGAGCTACTCACACCTGAGGTTGACACCTGTTCGGGAGGAAgtaagtgtt-gatcttggaatctgttaactctc-atggttttaattaaaaaggcagaagtttcaattagtggatgggcagtgcacagaaaaactacaatcaa

upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA11G12260.1 (Glycine max), 5'ss of exon 10
TACATCCACAGCAGAATCAGGATCTGAAGCTGAAGATATTGCTTCCCCAAAAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggtttttgactttttaacttgtgattactttattatttaattttattgactttgaatttatgttgtttccaatgatgtttttggaggatgccgattc--
 ||||||||||| |||||||| || |||||||||||||| ||||| ||||||  ||  ||||| || ||||| ||| ||||||| ||||| || || |||||  || ||   ||| | | ||  | | |   | ||  ||| | || |         | |||   ||  |      |  ||     ||  |     | ||  
CACATCCACAGCTGAATCAGGGTCGGAAGCTGAAGATATAGCTTCTCCAAAAGCGATGAAGAGCTACTCACACCTGAGGTTGACACCTGTTCGGGAGGAAgtgagtgttgatcttgtgatctattaact--ctcatggttttaattaaaaaggcagaagtttcaattagtggatgggcagtgcacagaaaaactatagtcaa

upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT4G39170.2 (Arabidopsis thaliana), 5'ss of exon 5
TACATCCACAGCAGAATCAGGATCTGAAGCTGAAGATATTGCT---TCCCCAAAAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggtttttgactttttaacttgtgattactttattatttaattttattgactttgaatttatgttgtttccaatgatgtttttggaggatgccgattc
   ||| || ||||||||||| ||||||||||||||||||| |   || ||||||      ||||||||||| || || || ||||| ||||| |||||||| ||| | |    |  |||| ||   |  ||  | ||  ||  |   ||  ||  |||||||         | | | ||||  ||||| ||           
---ATCAACTGCAGAATCAGGTTCTGAAGCTGAAGATATTGTTGTGTCTCCAAAAGCAGTAAAGAGTTATTCCCATCTCCGCTTGACCCCTGTTCGTGAAGAGgtatgat----atattttcacactttgtttttatagaatacatgattcgtggttttgaatcg-------tccaagtgattattttgcag-----------

upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT2G21520.1 (Arabidopsis thaliana), 5'ss of exon 9
TACATCCACAGCAGAATCAGGATCTGAAGCTGAAGATATTGCTTCCCCAAAAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggtttttgactttttaacttgtgat-tactttattatttaattt-tattgactttgaatttatgttgtttccaatgatgtttttggaggatgccgattc
 |||||||| ||||| ||||||||||| ||||||||||| | ||| || ||    |  |||||||  || || || || ||||| ||||| ||||| || |||  |||||    |||     | |  | || ||    |  || |   | || |   |||   | ||  |                                
CACATCCACTGCAGAGTCAGGATCTGACGCTGAAGATATCGGTTCTCCGAAGGCTATAAAGAGTTTCTCTCATCTCCGCTTGACACCTGTTCGTGAGGAGgtaacttttttctctttctttctatcttctagttggggaagtagtagatgtttatcctgaggctttgcag--------------------------------

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|351047103|gb|FQ454713.1|FQ454713
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351015523|gb|FQ447352.1|FQ447352
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351026236|gb|FQ428248.1|FQ428248
EST:     AAATGACTAAAAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         CCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTT
EST: gi|349822502|gb|FQ412766.1|FQ412766
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351014493|gb|FQ437495.1|FQ437495
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|30128724|gb|CB914063.1|CB914063
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351056783|gb|FQ443410.1|FQ443410
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351026103|gb|FQ428115.1|FQ428115
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351027625|gb|FQ446789.1|FQ446789
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|349826667|gb|FQ418758.1|FQ418758
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351055947|gb|FQ453408.1|FQ453408
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCCGTCCGTGAAGAA                         GCTAAAGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351044521|gb|FQ443052.1|FQ443052
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|349828849|gb|FQ419182.1|FQ419182
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAAGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGG
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGG
EST: gi|351039650|gb|FQ461517.1|FQ461517
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351056747|gb|FQ443374.1|FQ443374
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGGAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351040873|gb|FQ438417.1|FQ438417
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCCTGAAGAA                         GCTAAGGTAGTTGGAAAAGTAAGCTATGCTGGTAGCTTCGGGGGGTAAGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|87584671|gb|DY473747.1|DY473747
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|349819344|gb|FQ412238.1|FQ412238
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTCGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|349817039|gb|FQ399786.1|FQ399786
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         CCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGC
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGC
EST: gi|32270608|gb|CD719767.1|CD719767
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTTGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351034834|gb|FQ458191.1|FQ458191
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351024179|gb|FQ423602.1|FQ423602
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351021812|gb|FQ437197.1|FQ437197
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTTAGGTAGTTGGAAAGGTAACCTATGCTGGTAGCT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCT
EST: gi|351054162|gb|FQ450244.1|FQ450244
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
EST: gi|351038002|gb|FQ460744.1|FQ460744
EST:     AAATGACTAAGAGTTATTCACAACTGCGGTTGACCCCTGTCCGTGAAGAA                         GCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT
genomic: AAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggttttt ... ggaaatgcagGCTAAGGTAGTTGGAAAGGTAAGCTATGCTGGTAGCTTCGGGGGGTATGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TACATCCACAGCAGAATCAGGATCTGAAGCTGAAGATATTGCTTCCCCAAAAATGACTAAGAGTTATTCACAACTGCGGTTGACTCCTGTCCGTGAAGAAgtaggtttttgactttttaacttgtgattactttattatttaattttattgactttgaatttatgttgtttccaatgatgtttttggaggatgccgattc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA