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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctctgttgtatagagatctttacctactgatgttgtcagtgctacttgataggggtttaatgattttaaactcattagtttctctcaatttgctctgaagGAGGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT

Basic information

species Arabidopsis thaliana
transcript AT2G14120.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G14120.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA13G32940.1 (Glycine max), 3'ss of exon 9
ctctgttgt-atagagatctttacctactgatgttgtcagtgctacttgataggggtttaatgattttaaactcattagtttctctcaat-ttgctctgaagGAGGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT
 | ||   | |   |    ||||  |   | ||   |    || | |||  |    | |  | |||     |    | ||||  || |||  |    || ||||||| ||||| ||||||||| |||| | |||||| || || ||||| ||||| ||||| ||||| |||| ||| ||||| ||||||||||| 
atatgcgattacccaatcgtttatatggcgttgagttttaagcaa-ttggcaaaa-tgtgctaattccttgccttattgtttaacttaatgctatcatgcagGAGGTGGATCCGTGTGAAGACCTAACTGATGATGACATCCGTACTGCCATACAGAATGCTACTGGGCCCAAATCAGCATTGTTTGTTCCAGAA

upper sequence: AT2G14120.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA07G30150.1 (Glycine max), 3'ss of exon 9
ctctgttgtatagagatctttacctactgatgttgtcagtgc--tacttgataggggtttaatgattttaaactcattagtttctctcaatttgctctgaagGAGGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT
      |  || ||       |   |      |  || || |  | ||| |  |     |  ||| |   |    || |     |   | |||    |  ||||||| |||||||||||||| || || | |||||||||||| || || ||||| ||||| ||||| || | ||| ||| | ||||||||||| 
--tcactccattgaaccacccaatgatcatgttcctctgttcatttcttcaatgctagctcctgagtcctattatataatgcaataaaattttatcttacagGAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCCACTGGACCTAAATCAGCACTGTTTGTTCCAGAA

upper sequence: AT2G14120.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA08G07160.1 (Glycine max), 3'ss of exon 9
---ctctgttgtatagagatctttacctactgatgttgtcagtgctacttgataggggtttaatgattttaaactcattagtttctctcaatttgctctga-agGAGGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT
   |||  ||| |        |   | |  || | |  ||| | ||  |  ||    | |      |  ||   |   || |     | |||||  ||| | ||||||| |||||||| ||||| || || | |||||||||||| || || ||||| ||||||||||| || | ||| ||| | |||||||| || 
tcactccattgaaccacccaatgatcatgttgctctgttcatttct--tcaatgctagctcctgagtccta--ttatataatgcaattaaattttatctaacagGAGGTGGATCCATGCGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCAACTGGACCTAAATCAGCACTGTTTGTTCCTGAA

upper sequence: AT2G14120.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA15G06380.1 (Glycine max), 3'ss of exon 9
ctctgttgt-atagagatctttacctactgatgttgtcagtgctacttgataggggtttaatgattttaaactcattagtttctctcaat-ttgctctgaagGAGGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT
 | |||  | |   |    ||||  |  || ||   |    || | |||  |    | |  | |||     |    | ||||  || |||  |    || ||||||| ||||| ||||||||| | || | |||||| || || ||||| ||||| ||||| ||||| |||| ||| || || ||||||||||| 
atatgtgattacccaatggtttatatggtgttgagttttaagcaa-ttggcaaaa-tgtgctaattccttgccttattgtttaacttaatgctatcatgcagGAGGTGGATCCGTGTGAAGACCTGACTGATGATGACATCCGTACTGCCATACAGAATGCTACTGGGCCCAAATCAGCGTTGTTTGTTCCAGAA

upper sequence: AT2G14120.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA04G16340.1 (Glycine max), 3'ss of exon 9
ctctgttgtatagagatctttacctactgatgttgtc-agtgctacttgatagg---ggtttaatgattttaaactcattagtttctctcaat-ttgctctgaagGAGGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT
     || | |       | ||     | ||| |||  |||  ||  |||||||     | |  | |||     |    | || |  || |||  |    |||||||||| ||||| ||||||||| | || | ||| || ||||| ||||| ||||||||||| ||||| || | ||| ||| | |||| ||||  |
-----ttttgttattgcttgtatggttttatggtgttgagttttatgtgataggcaaaatgtgctaattccttgccttgttgtgtaacttaatgctatcatgaagGAGGTGGATCCGTGTGAAGACCTGACTGATGACGACATTCGTACTGCCATACAAAATGCTACTGGACCTAAATCAGCAGTGTTTGCTCCATCT

upper sequence: AT2G14120.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv03s0038g00970.t01 (Vitis vinifera), 3'ss of exon 10
ctctgttgtatagagatctttacctactgatgttgtcag---tgctacttgataggggtttaatgattttaaactcatta-gtttctctcaatttg-----ctctgaagGAGGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT
         || |||| | | ||    |  | |||  |    || |  ||| ||       |     | | | ||||| | || |      |||||     || || ||||||| ||||||||||| || || || | |||||| ||||| |||||||| || |||||||| || || ||||||||||||||||| ||||| 
---------atggagaacctcacaattttttattggtaaatctgatgtttgctaatttcagagctgctatgagctcatcaagtctgaggagatttgaatatctgtgcagGAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgataggggtttaatgattttaaactcattagtttctctcaatttgctctgaagGAGGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGAT
         gtttaat  putative branch site (score: 4)
                                           tttgctct  putative PPT
          tttaatgattttaaac  TA-rich tract