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

gtagagttttgagcttcatatctctgctctcatctgtttgaacattctcagtttcccttctctgttgtaatagttgatcaggtttaccggtgaattgattgctggttatacatattacttgaattctctttctgcatagCGGCAAGAATTGGGGAGGGAATATTGTTGGATCATGGAACTGGAGTGGTCATTGGTGAGACCGCTGTGATAGGCAACGGTGTCTCGATCTTACAT

Basic information

species Arabidopsis thaliana
transcript AT2G17640.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G17640.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os03g04140.1 (Oryza sativa), 3'ss of exon 5
gtagagttttgagcttcatatctctgctctcatctgtttgaacattctcagtttcccttctctgttgtaatagttgatcaggtttaccggtgaattgattgctggttatacatattacttgaattctctttctgcatagCGGCAAGAATTGGGGAGGGAATATTGTTGGATCATGGAACTGGAGTGGTCATTGGTGAGACCGCTGTGATAGGCAACGGTGTCTCGATCTTACAT
                          |  | |  | | ||||||||    ||||  ||| | ||   ||  |  |   |   ||| ||  |  ||   || ||     |   |||||||  |        ||||||  ||||| |||||||| |||||||||||||||||||||||||| ||  | || |||||||| || ||  |  | || ||| | || ||  |  | || 
--------------------------cagtgaagt-tatgaacatttgtggtttatcttttatgccttatcatgttcccttttttcccactttatc--ttccttacattctttattactaaa--------tctgca--gCGGCCAGAATTGGAGAGGGAATATTGTTGGATCATGGAACGGGTCTAGTTATTGGTGAAACTGCCATTGTTGGAAACTGGGTTTCATTAATGCAG

upper sequence: AT2G17640.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G048740_T03 (Zea mays), 3'ss of exon 5
gtagagttttgagcttcatatctctgctctcatctgtttgaacattctcagtttcccttctctgttgtaatagttgatcaggtttaccggtgaattgattgctggttatacatattacttgaattctctttctgcatagCGGCAAGAATTGGGGAGGGAATATTGTTGGATCATGGAACTGGAGTGGTCATTGGTGAGACCGCTGTGATAGGCAACGGTGTCTCGATCTTACAT
                                    | |||| || |  |  ||   || | | || |  ||| |  |  | |||     | ||||  ||  ||  | |    | |  ||   |  | ||       ||| || | |||||| |||||||||||||||||||||||||| ||  | ||||||||||| || |||||  | || ||| | || ||  |  | || 
------------------------------------tgtgaa-atccaaatgtttgattatttatttttttaggttgtatgctttgatacttaatttttt-ttgtgtgtcttcagtgttttt-tatttttaacatgcagCTGCCAAAATTGGCGAGGGAATATTGTTGGATCATGGAACAGGTCTAGTCATTGGTGAAACTGCTGTAGTTGGAAACTGGGTTTCATTAATGCAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taccggtgaattgattgctggttatacatattacttgaattctctttctgcatagCGGCAAGAATTGGGGAGGGAATATTGTTGGATCATGGAACTGGAGTGGTCATTGGTGAGACCGCTGTGATAGGCAACGGTGTCTCGATCTTACAT
        aattgat  putative branch site (score: 4)
                                       ttctctttctgcat  putative PPT
                     ttatacatattactt  TA-rich tract