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

gtttcacacttactgtctaaatttttatcctctttgtctactccatctgttcttacattgtattctatgctctggactatctcttttctgaagttaagttttcttttttgttctcagATGGCAAAATACTTCACCGCTTACAGAATTGATCATATACTGGGTTTCTTTAGAATCTGGGAGCTTCCAGAGCATGCTATGACAGGTCTAGTTGGAAAGT

Basic information

species Vitis vinifera
transcript Vv08s0040g00670.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0040g00670.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os07g46790.1 (Oryza sativa), 3'ss of exon 13
gtttcacacttactgtctaaatttttatcctctttgtctactccatctgttcttacattgtattctatgctctggactatctcttttctgaagttaagttttcttttttgttctcagATGGCAAAATACTTCACCGCTTACAGAATTGATCATATACTGGGTTTCTTTAGAATCTGGGAGCTTCCAGAGCATGCTATGACAGGTCTAGTTGGAAAGT
       | ||| |  | ||  |||| |||| | || ||  ||       ||||  || ||                 ||   || ||   |||||           |||||| |||||||||||||||||||| || || || || || |||||  ||||||||||||| || |||||||||||||| |||||    |||||||||||||| || |
----gttatttaatagcaaatattttttcctgtctggctggtca------tcttttatcgt----------------cattatttatcgccagtta---------ccttgttc-cagATGGCAAAATACTTCACTGCATATAGGATAGACCATATCTTGGGTTTCTTTAGGATATGGGAGCTTCCAGATCATGCAGCCACAGGTCTAGTTGGGAAAT

upper sequence: Vv08s0040g00670.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G136803_T02 (Zea mays), 3'ss of exon 3
gtttcacacttactgtctaaatttttatcctctttgtctactccatctgttcttaca-ttgtattctatgctctggactatctcttttctgaagttaagttttcttttttgttctcagATGGCAAAATACTTCACCGCTTACAGAATTGATCATATACTGGGTTTCTTTAGAATCTGGGAGCTTCCAGAGCATGCTATGACAGGTCTAGTTGGAAAGT
                                            || |    | ||| | |||||     ||    |   | || |||    | | |  |  |  |      |  ||||||||||| |||||||| || ||||| || || || ||  ||||||||||||| || |||||||||||||| ||||||   |||||| ||||||| || |
-----------------------------------------gttatttaacataacagtcgtatttctgactggtcatcttttccttttattattcatatcctactagcatgttgcagATGGCAAAGTACTTCACAGCATACAGGATAGACCACATCTTGGGTTTCTTTAGGATATGGGAGCTTCCAGATCATGCTGCAACAGGTTTAGTTGGGAAAT

upper sequence: Vv08s0040g00670.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA03G27600.1 (Glycine max), 3'ss of exon 13
gtttcacacttactgtctaaatttttatcctctttgtctactccatctgttcttacattgtattctatgctctggactatctcttttctgaagttaagttttcttttttgttctcagATGGCAAAATACTTCACCGCTTACAGAATTGATCATATACTGGGTTTCTTTAGAATCTGGGAGCTTCCAGAGCATGCTATGACAGGTCTAGTTGGAAAGT
||||     ||    |||  || ||   | | | ||   | |  |||  | |  | | |  | | |||   ||| | | | | |||| |    ||   |||| |   |      |||||||||||||| || || |||||||| |||||||| ||| |||| |||||  |||| ||||| ||||| || ||||||  ||||||||| |||||||| |
gttttggttttgaattcttgatcttgtccttatatggacaata-atccatcc--aaagttaaatatataggctgaattctttttttttttgtatt---ttttttaaatccacaacagATGGCAAAATATTTTACAGCTTACAGGATTGATCACATATTGGGATTCTTCCGAATTTGGGAACTTCCGGATCATGCTGCGACAGGTCTTGTTGGAAAAT

upper sequence: Vv08s0040g00670.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA19G30580.1 (Glycine max), 3'ss of exon 14
gtttcacacttactgtctaaatttttatcctctttgtctactccatctgttcttacattgtattctatgctctggactatctcttttctgaagttaagttttcttttttgttct----cagATGGCAAAATACTTCACCGCTTACAGAATTGATCATATACTGGGTTTCTTTAGAATCTGGGAGCTTCCAGAGCATGCTATGACAGGTCTAGTTGGAAAGT
||||     ||    |||  || ||   | | | ||   | |   ||  | |  | | |  | | ||    ||| |   | | | ||   |  ||   |||| |||||   ||     |||||||||||||| || || |||||||| |||||||| ||  |||| |||||  |||| ||||| ||||| || ||||||  ||||||||| |||||||| |
gttttggttttgaattcttgatcttgtccttatatggacaata-gtccatcc--aaagttaaatatagaggctgaatcttttttattt--attttgtattttttttttaaatccacaacagATGGCAAAATATTTTACAGCTTACAGGATTGATCACATTTTGGGATTCTTCCGAATTTGGGAACTTCCGGATCATGCTGCGACAGGTCTTGTTGGAAAAT

upper sequence: Vv08s0040g00670.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT2G40840.1 (Arabidopsis thaliana), 3'ss of exon 13
gtttcacacttactgtctaaatttttatcctctttgtctactccatctgttcttacattgtattctatgctctggactatctcttttctgaagttaagttttcttttttgttctcagATGGCAAAATACTTCACCGCTTACAGAATTGATCATATACTGGGTTTCTTTAGAATCTGGGAGCTTCCAGAGCATGCTATGACAGGTCTAGTTGGAAAGT
                                   ||       || ||| |||||     |    || || || |  ||||     ||||    |  ||   |  ||  ||  |||||||  ||||| ||||| || ||||| |||||||||||| |||| ||||| |||||||||||||||||||  ||||||||||| ||| |||| || ||||
-----------------------------------gttggaattat-tgtccttaccagccac---atcctttgtag-atctgaaggctga--ccacattgcatacttgctttgcagATGGGGAAATATTTCACAGCATACAGGATTGATCATATATTGGGATTCTTCAGAATCTGGGAGCTTCCAGCTCATGCTATGACTGGTTTAGTGGGGAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctatgctctggactatctcttttctgaagttaagttttcttttttgttctcagATGGCAAAATACTTCACCGCTTACAGAATTGATCATATACTGGGTTTCTTTAGAATCTGGGAGCTTCCAGAGCATGCTATGACAGGTCTAGTTGGAAAGT
                                    ttttcttttttgttct  CT-rich tract
                               ttaagttttctttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttcacacttactgtctaaatttttatcctctttgtctactccatctgttcttacattgtattctatgctctggactatctcttttctgaagttaagttttcttttttgttctcagATGGCAAAATACTTCACCGCTTACAGAATTGATCATATACTGGGTTTCTTTAGAATCTGGGAGCTTCCAGAGCATGCTATGACAGGTCTAGTTGGAAAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA