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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctttcacttaccctctgctaaatacgccccttaagaattttgactggattttgcttttcaagaatttctcaactacattcttttaaacagGTATATCCAATGTACAAGGCTTTTATTGAGCCAGATCTCGGAACAGCACATATAAAAATCACCAATAAGTTCAACCCATTCACTGGATTTCAGAGTCCCA

Basic information

species Vitis vinifera
transcript Vv01s0010g01080.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g47860.2 (Oryza sativa), 3'ss of exon 4
-----------------------------------------------------------------gttctttcacttaccctctgctaaatacgccccttaagaattttgactggattttgcttttcaagaattt------ctcaactacatt-------cttttaaacagGTATATCCAATGTACAAGGCTTTTATTGAGCCAGATCTCGGAACAGCACATATAAAAATCACCAATAAGTTCAACCCATTCACTGGATTTCAGAGTCCCA
                                                                  |  |   ||  |||      | | | |||   |||    || |   |  | | |  ||||||   || |       | ||| | ||           ||   ||||| ||||| ||||| |||||||| |||||||||||  |    ||||||||||||||||| | ||| ||||||||||||||| | || || || | ||| |
gttgcttcacctttttgaacttgaccctatatatgcctttcccctatcttttgtttccacaaaagatcttaatacaaaccaaacattcatttcgcaatttatattttgtatgtatagtatctttttcatccatctgtgttgtttaacaagatgaacgatggcatttttcagGTTTATCCGATGTATAAGGCTTTCATTGAGCCAGACTTGCAGACAGCACATATAAAAATAATCAACAAGTTCAACCCATTCTCAGGGTTCCAAAATCCTA

upper sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G147430_T02 (Zea mays), 3'ss of exon 4
---------gttctttcactt------accctctgctaaatacgccccttaagaattttgac--tggattttgcttttcaagaattt------ctcaact--acattcttttaaacagGTATATCCAATGTACAAGGCTTTTATTGAGCCAGATCTCGGAACAGCACATATAAAAATCACCAATAAGTTCAACCCATTCACTGGATTTCAGAGTCCCA
          || |   ||||      ||  | |   |   | |    |    | | || ||  || |||     || |   ||||        | ||    | ||    ||   ||||| |||||||||||||||||||| || || |||||| | |  || |||||||| || |||| ||| ||||||||||||||  | || || || | ||| |
gtaggttgaattttccaacttggctatacattttatgagcaatgttgttgtccattgttaacagtgaattacctcttactgtaattggtgtggtttaatgaaatatgacatttttcagGTTTATCCAATGTACAAGGCTTTCATCGAACCAGATTTGGAGACCGCACATATTAAGATCATCAACAAGTTCAACCCATTTTCAGGGTTCCAAAATCCTA

upper sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G09660.1 (Glycine max), 3'ss of exon 4
gttctttcacttaccctctgctaaatacgccccttaagaattttgactggattttgcttttcaagaatttctcaactacattcttttaaacagGTATATCCAATGTACAAGGCTTTTATTGAGCCAGATCTCGGAACAGCACATATAAAAATCACCAATAAGTTCAACCCATTCACTGGATTTCAGAGTCCCA
|||| | |  |||   |    |  || |      ||   |||| ||    || | |  |||| |||| | || || |  |  | |||   ||||| ||||||||||||||||| ||||| ||||||||||||   ||||||||||||||||||| ||| || ||||| ||||| |||||||| |||||||| |
gttcatacttttataattcctttcat-ctttttatacagatttagaaaatatct-gtatttctagaagtgcttaagtttaaacatttt--cagGTGTATCCAATGTACAAGGCATTTATCGAGCCAGATCTCCAGACAGCACATATAAAAATCATCAACAAATTCAATCCATTTACTGGATTCCAGAGTCCTA

upper sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G14110.1 (Glycine max), 3'ss of exon 4
gttctttcacttaccctctgctaaatacgccccttaagaattttgactggattttgcttttcaagaatttctcaactacattcttttaaacagGTATATCCAATGTACAAGGCTTTTATTGAGCCAGATCTCGGAACAGCACATATAAAAATCACCAATAAGTTCAACCCATTCACTGGATTTCAGAGTCCCA
|||| | |  |||   |    |   | |      ||   |||| ||    | | ||  |||| |||| | || || |  |  | |||   ||||| ||||||||||||||||| ||||| ||||||||||||   |||||||| |||||||||| ||| || ||||| ||||| |||||||| |||||||| |
gttcatacgtttataattcctttggt-ctttttatacagatttgga---aaatatgtgtttccagaagtgcttaagtttaaacatttt--cagGTGTATCCAATGTACAAGGCATTTATCGAGCCAGATCTCCAGACAGCACACATAAAAATCATCAACAAATTCAATCCATTTACTGGATTCCAGAGTCCTA

upper sequence: Vv01s0010g01080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G26190.1 (Arabidopsis thaliana), 3'ss of exon 4
gttctttcacttaccctctgctaaatacgccccttaagaattttgactggattttgcttttcaagaatttctcaactacattct-tttaaacagGTATATCCAATGTACAAGGCTTTTATTGAGCCAGATCTCGGAACAGCACATATAAAAATCACCAATAAGTTCAACCCATTCACTGGATTTCAGAGTCCCA
|||  | | | |  | | |  |   |  | |  ||  |  ||| |  |      |||   |   |  | | | ||| ||   || ||||   ||||||| || |||||||| ||||| |||||||||||||||   || || || || |||||||  ||||| |||||||| |||||||| |||||||| || |
gtttgtcctcatttcttttatttcgtgtgactgtttgg--tttagtatatgagctgccaatt--gtttatattaacaactcactgtttatgtagGTATACCCGATGTACAAAGCTTTCATTGAGCCAGATCTCCAGACTGCTCAAATCAAAATCATTAATAAATTCAACCCCTTCACTGGTTTTCAGAGCCCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattttgactggattttgcttttcaagaatttctcaactacattcttttaaacagGTATATCCAATGTACAAGGCTTTTATTGAGCCAGATCTCGGAACAGCACATATAAAAATCACCAATAAGTTCAACCCATTCACTGGATTTCAGAGTCCCA
  ttttgac  putative branch site (score: 3)
                                        cattctttt  putative PPT
                                      tacattcttttaaa  TA-rich tract