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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaacttgcctaaaaggcagaaacttttgcatctttcttcatgattccttatgttttgtcatgacttaaacattttgaagcttgactattcctctattaattattcttccttggttttccagGTAAAGATATCCTTGCGAAGGCCAAAACAGGCACTGGGAAAACAGTTGCATTTTTG

Basic information

species Arabidopsis thaliana
transcript AT5G08620.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G08620.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G026371_T02 (Zea mays), 3'ss of exon 2
gtgaacttgcctaaaaggcagaaacttttgcatctttcttcatgattccttatgttttgtcatgacttaaacattttgaagcttgactattcctctattaattattcttccttggttttccagGTAAAGATATCCTTGCGAAGGCCAAAACAGGCACTGGGAAAACAGTTGCATTTTTG
      | |   |||| ||| || || |||| |     |  |  |||    |  | |||           |  | |||||| | ||| ||| |  ||||  || ||        |   |  ||| || ||| | ||||| ||||| || ||||| ||||||||||||||||| ||||||
-----gtcggtgaaaatgcaaaagctattgcttagcattataaaatt----aaatcttg---------ggaggtcttgaaggt-gac-atttcaatatt--ttgtt--------gccatgtagGCAAGGATGTTCTTGCAAAGGCAAAGACAGGAACTGGGAAAACAGTTGCCTTTTTG

upper sequence: AT5G08620.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv15s0046g01010.t01 (Vitis vinifera), 3'ss of exon 3
gtgaacttgcctaaaaggcagaaacttttgcatctttcttcatgattccttatgttttgtcatgacttaaacattttgaagcttgactattcctctattaattattctt-----ccttggttttccagGTAAAGATATCCTTGCGAAGGCCAAAACAGGCACTGGGAAAACAGTTGCATTTTTG
                        || ||  | | || || ||| | || | | || | |   |   ||    | || ||   | |  ||| || |     ||| |||         || ||||  |||||| ||| | || || || || |||||||||||||||||||| || |||||||||
------------------------ctattttaccgttgtttatgttcccatttattctatttag---tatgtttctttaattctcag-atttctgtggggcttactctggtgagttgtgtttttatagGTAAGGATGTTCTAGCCAAAGCTAAAACAGGCACTGGGAAAACTGTCGCATTTTTG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacattttgaagcttgactattcctctattaattattcttccttggttttccagGTAAAGATATCCTTGCGAAGGCCAAAACAGGCACTGGGAAAACAGTTGCATTTTTG
                           tattaat  putative branch site (score: 2)
                                    ttcttccttggttttc  putative PPT
                         tctattaattattctt  TA-rich tract