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'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAGgtacaaaggtcattgatgtgtccatttatgcacactacatcatattgcttctgtattatcttactgattagaactattgcagctaaacaaacctagaggc...

Basic information

species Vitis vinifera
transcript Vv10s0071g00210.t01
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA09G42180.1 (Glycine max), 5'ss of exon 14
GAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAGgtacaaaggtcattgatgtgtccatttatgcacactacatcatattgcttctgtattatcttactgattagaactattgcagctaaacaaacctagaggc-------
|||||||| |||||||| |||||||||  || |||||| ||||| ||||| |||||||| || ||||||||||||||||||||      |||  ||||| |       | | ||       ||    |||    |  |||  | ||| |||  ||| |||    | ||   |||           
GAATATATTCAAGATGGCATTGACTGGGCTAAAGTTGAATTTGAAGACAACCAAGACTGCCTTAATCTTTTTGAGAAGgtaca----ctatttctgtgttccccctgactc-cttttctgcataatctctagtgtg-cttgttaatt-gaatgatttcagtgggaaaatgttagttaatcagtta

upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA10G43230.1 (Glycine max), 5'ss of exon 14
GAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAGgtacaaaggtcattgatgtgtccatttatgcacactacatcatattgcttctgtattatcttactgattagaactattgcagctaaacaaacctagaggc----
||||||||||||||||||||||| |||  || |||||| ||||| ||||||||||| || || ||||||||||| |||||||| || ||  |       |  || |      ||   | || ||   ||||| || | ||||  ||||||| ||| |  || ||   ||    ||       
GAATATATCCAAGATGGAATTGATTGGGCTAAAGTTGAATTTGAAGACAATCAAGATTGCCTTAATCTTTTTGAAAAGgtacagagctcccttgccccact-ttgaccttttctgtgtaatctttactctgtttt-tattac-aattagaa-tatggaggcaaaggcaatagggaaaactta

upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA20G23660.1 (Glycine max), 5'ss of exon 16
GAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAGgtacaaaggtcattgatgtgtccatttatgcacactacatcatattgcttctgtattatcttactg--attagaactattgcagctaaacaaacctagaggc----
||||||||||||||||||||||| |||  || |||||| ||||| ||||||||||| || || ||||||||||| |||||||| || |   |    || ||   | ||  |  | |    || | |||  || |  | ||| |   ||||||| ||| | ||  |||   |    ||       
GAATATATCCAAGATGGAATTGATTGGGCTAAAGTTGAATTTGAAGACAATCAAGATTGCCTTAATCTTTTTGAAAAGgtacagagcttcct----tgccctactttgaccttttctgtgtaat-ctttagtgtgcttttattagaattagaa-tatggaaggcaaaggtaataggaaaaactt

upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: GLYMA20G00320.1 (Glycine max), 5'ss of exon 16
GAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAGgtacaaaggtcattgatgtgtccatttatgcacactacatcatattgcttctgtattatcttactgattagaactattgcagctaaacaaacctagaggc--
|||||||| |||||||| |||||||||  || |||||| ||||| ||||| |||||||| || ||||||||||||||||| ||||  |  ||  |||  ||  | |  |    |       ||  ||  |||  |   | | ||| |      | ||     |    | |  |   |   
GAATATATTCAAGATGGCATTGACTGGGCTAAAGTTGAATTTGAAGACAACCAAGACTGCCTTAATCTTTTTGAGAAGgtccaaaatttctt--tgttccccctgactccttttctgcataatctctggtgtgcttgttaattgaatgatttcagtgggaaaatgttagctaatcagtta

upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: AT3G19960.2 (Arabidopsis thaliana), 5'ss of exon 18
GAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAGgta------caaaggtcattgatgtgtccatttatgcacactacatcatattgcttctgtattatcttactgattagaactattgcagctaaacaaaccta-gaggc------------------------------------------------------
||||||||||| ||||| ||||||||||  || ||||||||||||||||| ||| | ||||| | ||||||||| ||||||      || |   || |    |    |   ||    |  || | || | |    | ||   | | |||  |    |||||   | |  |   ||     ||                                                         
GAATATATCCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAAATTGTCTGAGTCTTTTTGAAAAGgtatataatcagaaaacaatagactaggaagcgatatggataacctaat-tagaagatatagagtttaactattacacactataaaaccgtagttaattggtgaaatgcttactttagtcaaacatttattttaaggcacttacgtctgttgtctgtgcag

upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 5'ss of exon 16
GAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAGgtacaaaggtcattgatgtgtccatttatgcacacta--catcatattgcttctgt-attatcttactgattagaactattgcagctaaacaaacctagaggc
|||||||| || ||||| ||||||||||  || ||||||||||||||||| ||||| ||||| | ||| ||||| ||||||    | |   | ||   | ||| ||    ||  |  ||||||||      | | | ||| |   | | |     || |  |   | |     |    |  
GAATATATTCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAGAATGTCTTAGTCTCTTTGAAAAGgtaatgtgatagctaat---ttcatctagagtcagcaatcatcatatgttacatatcagtatgtctgttactcaggataatatattaacattttgccgatgat

upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: PP1S17_368V6.1 (Physcomitrella patens), 5'ss of exon 14
GAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAGgtacaaaggtcattgatgtgtccatttatgcacactacatcat----attgcttctgtattatcttactgattagaac---tattgcagctaaacaaacctagaggc-------------------------------------------------------------------------
|| ||||     ||    ||||| ||||  ||||| |||||||| ||||||||||| |||||  ||||| ||||||||||| | | |   || |||  |   | || |||||  |  | ||    | | |      |||| |    |  || || |   | |||    |    |||  |  |                                                                            
GAGTATACATCCGAAAATATTGATTGGACAAGAGTGGATTTTGAAGACAATCAAGAGTGTCTTGATCTTATTGAGAAGgtatacatgctttttatgactttttctaggcacatgaactgatcgacaatccgaacaaattaccgattttgttggaccgggtcttgttattgcgaaaagttcaaataatgtgtaagaccactgcaaatcatatcattgcggataataaacctaacaatgttatggacatacactgggcag

upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 5'ss of exon 15
lower sequence: PP1S228_18V6.1 (Physcomitrella patens), 5'ss of exon 15
GAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAGgtacaaaggtcattgatgtgtccatttatgcacactacatcatatt------gcttctgtattatcttactgattagaactattgcagctaaacaaacctagaggc
|| ||||     ||    ||||| ||||  || || |||||||| ||||||||||| |||||  ||||| |||||||||||   | |      |||     |||   |  |   |  | |||         ||  ||  | ||  | || | |  |  |||||        | || |       
GAGTATACGTCTGAAAATATTGATTGGACGAGGGTGGATTTTGAAGACAATCAAGAATGTCTTGATCTTATTGAGAAGgtatgtatgcttcgcatgacgttattcgagttcttgaactaataaatgaaaaactcttgcgtcatgctgctaactgtacatattggtttatttcgaatcc------

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAGgtacaaaggtcattgatgtgtccatttatgcacactacatcatattgcttctgtattatcttactgattagaactattgcagctaaacaaacctagaggc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaaa