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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatcctccatttcgttattgaaggactaattaaaatttcatgactcatgagtgctgttactgctatatgaacatattttgataattaacttgcattatagGGAGTTAATCTACCTTCTGCACTTGAATTTCGAAAAGAGTTGTCTAGGCTTCCAGACATGGAGCGGTTGCTTGCACGTATCTTTGCTAGCAG

Basic information

species Vitis vinifera
transcript Vv07s0005g01370.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g01370.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA19G40350.1 (Glycine max), 3'ss of exon 10
aatcctccatttcgt-tattgaaggactaattaaaatttcatgactcatgagtgctgttactgctatatgaacatattttgataattaacttgcattatagGGAGTTAATCTACCTTCTGCACTTGAATTTCGAAAAGAGTTGTCTAGGCTTCCAGACATGGAGCGGTTGCTTGCACGTATCTTTGCTAGCAG
  | ||  ||    | | | |   || | |    |   | || |   |  ||  |   |  ||  ||||  |    |||||| |  | | |||| || |||||||||||||||||||||||||| |||||||||||||  || |  | ||| || |||||||||||||||||||| || |||||| |    ||
tctactagatgatatatgtggctagattgagctgatgataatcatcaaatagaaccaat-ttgtaatattgagtgtttttgaaatatgatttgctttttagGGAGTTAATCTACCTTCTGCACTAGAATTTCGAAAAGCATTATACAAGCTACCTGACATGGAGCGGTTGCTTGCCCGCATCTTTTCCTCTAG

upper sequence: Vv07s0005g01370.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA03G37750.1 (Glycine max), 3'ss of exon 8
aatcctccatttcgttattgaa-ggactaattaaaatttcatgactcatgag-tgctgttactgctatatgaacatattttgataattaacttgcattatagGGAGTTAATCTACCTTCTGCACTTGAATTTCGAAAAGAGTTGTCTAGGCTTCCAGACATGGAGCGGTTGCTTGCACGTATCTTTGCTAGCAG
  | ||  ||    |   |||   || | |    |   | || |     ||| |        ||  ||||  |    |||||| |  | | ||||  | |||||||||||||||||||||||||| ||||||| |||||  || || | | | || ||||||||||||||||||||  | |||||| |    ||
--tactagatgatatatctgactagattgagctgacgataatcatcagagagataaccaatttgtaatattgagtgtttttgaaatatgatttgctatttagGGAGTTAATCTACCTTCTGCACTAGAATTTCTAAAAGCATTATCCAAGTTACCTGACATGGAGCGGTTGCTTGCCTGCATCTTTTCCTCTAG

upper sequence: Vv07s0005g01370.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT4G02070.2 (Arabidopsis thaliana), 3'ss of exon 10
aatcctccatttcgtta---ttgaaggactaatt-aaaatttcatgactcatgagtgctgttactgctatatgaacatattttgataattaacttgcattatagGGAGTTAATCTACCTTCTGCACTTGAATTTCGAAAAGAGTTGTCTAGGCTTCCAGACATGGAGCGGTTGCTTGCACGTATCTTTGCTAGCAG
  |||   |  |  | |   ||      ||  || |  || ||| | ||   |  | |   ||    | |   ||  |||| || || |   | | |  |  |||| |  ||||| || |   |||| ||||| || ||   |||||| || |||||||||||||| |||||| |||||||||| ||| |||||| 
--tccctaagattataaagcttactctgcttcttcagcatgtcaaggctttcgtttac-actatccatctgacaatgtattatggtactgtcccttccct-cagGGTGAAAATCTTCCGTACTCACTGGAATTCCGGAAGTCGTTGTCCAGACTTCCAGACATGGAACGGTTGATTGCACGTATGTTTTCTAGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgagtgctgttactgctatatgaacatattttgataattaacttgcattatagGGAGTTAATCTACCTTCTGCACTTGAATTTCGAAAAGAGTTGTCTAGGCTTCCAGACATGGAGCGGTTGCTTGCACGTATCTTTGCTAGCAG
                                     aattaac  putative branch site (score: 2)
                  tatatgaacatatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatcctccatttcgttattgaaggactaattaaaatttcatgactcatgagtgctgttactgctatatgaacatattttgataattaacttgcattatagGGAGTTAATCTACCTTCTGCACTTGAATTTCGAAAAGAGTTGTCTAGGCTTCCAGACATGGAGCGGTTGCTTGCACGTATCTTTGCTAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- tcctcca
- - - - - - - - - - - - - -aattaaa
- - - - - - - - - - - - - - - - - - -tcatgac
- - - - - - - - - - - - - - - - - - - - - - -catgagt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgctat