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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgattagatatctcatatttggccttcgttttaactttgaagcgttacatagaatgacacatttctacagGGTGAAGTATACAAGTTGTTTTGGCCAGAACATTCAGAGTTTGTAAGGACCGCATCTAAATTTGGAACAAAAATCATTCCTTTTGGGGTTGTTGGTGAAG

Basic information

species Arabidopsis thaliana
transcript AT5G41130.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G41130.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA16G05580.1 (Glycine max), 3'ss of exon 10
---------------------gtaatgattagatatctcatatttggccttcgttttaactttgaagcgtt----acatagaatgacacatt--tctacagGGTGAAGTATACAAGTTGTTTTGGCCAGAACATTCAGAGTTTGTAAGGACCGCATCTAAATTTGGAACAAAAATCATTCCTTTTGGGGTTGTTGGTGAAG
                      | ||   |   | |||| |||||   ||| |   ||     ||  ||||    |  |  ||     ||||  |   |||||||||| ||||||||| || ||||| ||||| || |||||||||||||  ||| | | ||||||| | |||||  | |||||||| || ||||| ||||
tatgaaattttttaggctcactttatctgtctctgtctc-tatttatgctttgaaatataccagagtcgtttaaaatctccaacattgcattaattctcagGGTGAAGAATACAAGTTATTCTGGCCTGAACAATCCGAGTTTGTAAGGATGGCAGCAAGATTTGGAGCCAAAATAGTACCTTTTGGTGTAGTTGGAGAAG

upper sequence: AT5G41130.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv14s0068g01430.t01 (Vitis vinifera), 3'ss of exon 10
------------------------gtaatgattagatatctcatatttggccttcgtttt--aactttgaagcgttacatagaatgacacat-ttctacagGGTGAAGTATACAAGTTGTTTTGGCCAGAACATTCAGAGTTTGTAAGGACCGCATCTAAATTTGGAACAAAAATCATTCCTTTTGGGGTTGTTGGTGAAG
                         ||   || |  ||   ||| |  ||    |  |||  || |       |  | |   |||    ||| || |  ||||||| | |||||||||||||||||||||||| || ||||||||  | |  ||  |||  |||||| | ||||| || || ||||| |||||||| ||||
aaaatatgtgtgcatgtatatttcatagccatgaagtaga-catgtcggggtcacaattttaaaataccttttgcaatactcaattgttcatattgtttagGGTGAGGAATACAAGTTGTTTTGGCCAGAACAATCTGAGTTTGTCCGAATTGCGGCTAGGTTTGGAGCCAAAATTATACCCTTTGGAGTTGTTGGAGAAG

upper sequence: AT5G41130.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv14s0068g01440.t01 (Vitis vinifera), 3'ss of exon 10
-----------------------------------------------------------------------------------------------------------------------------gtaatgattagatatctcatatttggccttcgttttaactttgaagcgttacatagaatgacacat-ttctacagGGTGAAGTATACAAGTTGTTTTGGCCAGAACATTCAGAGTTTGTAAGGACCGCATCTAAATTTGGAACAAAAATCATTCCTTTTGGGGTTGTTGGTGAAG
                                                                                                                             || |     | ||  || | | || |   |   || |||| |     |  |||   ||      |  || | |||||||| | ||||||||||||||||||||||   || |||||| |  | |  ||  ||| ||||||| | |||||  | || |||||||| ||||| ||||
gtaacattttagtaattacattctacattgaagtacattgctctggataaaagtgtttttttttttcctttaggttcctacaacaaaaattcatataaacatgtgcattatatgtgtgcatggctgtgaaagaaatatgccttagaatttgaagt--attaaactcttttttgcaacacccaactgtttacattgtccagGGTGAGGAATACAAGTTGTTTTGGCCAGAATCATCTGAGTTTATCCGAATGGCGGCTAGATTTGGAGCCAAAATTGTACCCTTTGGGGTGGTTGGAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttggccttcgttttaactttgaagcgttacatagaatgacacatttctacagGGTGAAGTATACAAGTTGTTTTGGCCAGAACATTCAGAGTTTGTAAGGACCGCATCTAAATTTGGAACAAAAATCATTCCTTTTGGGGTTGTTGGTGAAG
             ttttaac  putative branch site (score: 2)
                                            catttct  putative PPT
             ttttaacttt  TA-rich tract