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'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   		27  
 5'  3'   		28  
 5'  3'   		29  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtctatttcatatccaagcaactatgtgtaaacatgtttatttatgatgaaatgttggtaacaccaatttttcaactctataattttgcagAGTGTTCCTGTACAAGCTGGACAAACTCCTCCATTGTTACAGTATTTTGGGACTCTTTTGACTAGAGGGAAACTCAATTCATATGAGTCACTGGAACTAT

Basic information

species Arabidopsis thaliana
transcript AT3G08530.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 11
gtgtctatttcatatccaa--gcaactatgtgtaaacatgtttatttatgatgaaatgttggt-aacaccaatttttcaactctataattt----tgcagAGTGTTCCTGTACAAGCTGGACAAACTCCTCCATTGTTACAGTATTTTGGGACTCTTTTGACTAGAGGGAAACTCAATTCATATGAGTCACTGGAACTAT
 | |  ||||  | |||           |||  ||  |   ||| |  | |||   |  || |  ||     ||||||   ||| |  |||    |||||||||||||||| |||||||| ||||| |||||| | || ||||| ||||| ||  |  | ||| | ||||| |||||| | || ||||| || || ||||
attttcatttactttcctgtgttgggactgtacaactaatcttaatgcttatgctcttctgcttgacttagctttttcgtttctgtgctttaaaatgcagAGTGTTCCTGTTCAAGCTGGGCAAACGCCTCCACTCTTGCAGTACTTTGGCACATTGCTAACTCGGGGGAAGCTCAATGCTTACGAGTCTCTTGAGCTAT

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 11
gtgtctatttcatatccaa--gcaactatgtgtaaacatgtttatttatgatgaaatgttggt-aacaccaatttttcaactctataatttt----gcagAGTGTTCCTGTACAAGCTGGACAAACTCCTCCATTGTTACAGTATTTTGGGACTCTTTTGACTAGAGGGAAACTCAATTCATATGAGTCACTGGAACTAT
 | |  ||||  | |||           |||  ||  |   ||| |  | |||   |  || |  ||     ||||||   ||| |  ||||    ||||||||||||||| |||||||| ||||| |||||| | || ||||| ||||| ||  |  | ||| | ||||| |||||| | || ||||| || || ||||
attttcatttactttcctgtgttgggactgtacaactaatcttaatgcttatgctcttctgcttgacttagctttttcgtttctgtgcttttaaatgcagAGTGTTCCTGTTCAAGCTGGGCAAACGCCTCCACTCTTGCAGTACTTTGGCACATTGCTAACTCGGGGGAAGCTCAATGCTTACGAGTCTCTTGAGCTAT

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 11
-------------------------------------------------------------------------------gtgtctatttcatatcca-agcaactatgtgtaaacatgtttatttatgatgaaatgttggtaacaccaatttttcaactctataattttgcagAGTGTTCCTGTACAAGCTGGACAAACTCCTCCATTGTTACAGTATTTTGGGACTCTTTTGACTAGAGGGAAACTCAATTCATATGAGTCACTGGAACTAT
                                                                                ||| || |   |  |   ||    | |   |     || | | ||| | |  ||||||   ||  |||  || ||  || ||     | ||||||||||||||| |||||||| |||||||||||  |||| ||||||||||| || ||||| || || || || || ||| | | ||| ||| | ||| |||
gtttcttgataagatgttgctatctgagaattgtctcttgcttttttagccactttattcacagagattcattttctggttgtttactgtttgcctttaggtggtgtccttttgtttggtcaatta-gttataatgtttaaaatgcca--ttatctgctttacg---tggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCTCTGTTGCAGTATTTTGGAACACTTTTAACAAGGGGAAAGCTGAATGCCTTTGAATCATTAGAATTAT

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 11
-----------------------------------------------------------------------gtgtctatttcatatccaagcaactatgtgtaaacatgtttatttatgatgaaatgttggtaacacc---aat-ttttcaactctataattttgcagAGTGTTCCTGTACAAGCTGGACAAACTCCTCCATTGTTACAGTATTTTGGGACTCTTTTGACTAGAGGGAAACTCAATTCATATGAGTCACTGGAACTAT
                                                                        | |||  ||  |  |       || |  || |   |  || | | || | || |  |  |||       |||    | | ||   | || | ||||||||||||||| |||| ||| ||||||||||| ||||| ||||||||||| || ||||| || || || ||  | ||| | | ||| ||| | ||| | |
gtttcttgataagatgttgctatctgggaattttctcttgcttttttagctacttcattcacagagattcattttctggttgtttactgtttgcctttaggtga-tgtccttttgtttggtcaattagttataatgtttaaaatgccattatctgctttatgtggcagAGTGTTCCTGTGCAAGTTGGGCAAACTCCTCCTTTGTTGCAGTATTTTGGAACACTTTTAACAAGGGGAAAGTTGAATGCCTTTGAATCATTAGAATTGT

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 11
-----------------------------------------------------------------------------------------gtgtctatttcatatccaagc---aactatgtgtaaacatgt--ttatttatgatgaa--atgttggtaacaccaatttttcaa---ctctataattttgcagAGTGTTCCTGTACAAGCTGGACAAACTCCTCCATTGTTACAGTATTTTGGGACTCTTTTGACTAGAGGGAAACTCAATTCATATGAGTCACTGGAACTAT
                                                                                          ||  ||    |||    ||    || | | | ||    |||  || ||  || | ||  | | ||  |     ||  | |||    || | | || | ||||||||||||||| |||||||| |||||||||||| | || ||||||||||| || ||| | || ||||| || || ||| | | ||||||| ||||| | |
gttttgtatataagatatagccatcaaatattttagttgtgctctttcatcaacaaatttaacctagacaatcatctttgtggagaatgatggataaaggataaaagagtttgaaatgtttttaggtttgttctttttcttggtcaattaggctgtcatgtttaaagtgtcacgatctgttttatgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCACTATTGCAGTATTTTGGAACACTTCTAACAAGAGGAAAGCTGAATGCCTTTGAGTCATTGGAATTGT

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 11
------------------------------------------------------------------------------------------------gtgtctatttcatatccaagcaact-atgtgtaaacatgtttatttatgatgaaatgttggtaacaccaatttttcaa-ctctataattttgcagAGTGTTCCTGTACAAGCTGGACAAACTCCTCCATTGTTACAGTATTTTGGGACTCTTTTGACTAGAGGGAAACTCAATTCATATGAGTCACTGGAACTAT
                                                                                                  |  ||      ||   | |   | | || |   | | ||  |     || |     |  |      | | | |||| || | | || | ||||||||||||||| |||||||| |||||||||||| | || ||||||||||| || ||| | || ||||| || || ||| | | ||||||| ||||| | |
gttttgtatataagatacagccatcaaatattttgttcgtgctctttcatcaacaaatttaacctagacaatcatctttgcttgttttgagggataaaggataaaaggaatttgaactgtttaggtttgttctttttcttggtcaattaggctatcatggttaaagtgtgtcaatctgttttatgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCACTATTGCAGTATTTTGGAACACTTCTAACAAGAGGAAAGCTGAATGCCTTTGAGTCATTGGAATTGT

upper sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 11
------gtgtctatttcatatccaagcaactatgtgtaaacatgtttatttatgatgaaatgttggtaacaccaattt-ttcaactctataatttt-gcagAGTGTTCCTGTACAAGCTGGACAAACTCCTCCATTGTTACAGTATTTTGGGACTCTTTTGACTAGAGGGAAACTCAATTCATATGAGTCACTGGAACTAT
       | | | ||   | |  ||  ||| ||        || ||    |  ||  | ||| |    ||      || |||   | | ||||||| ||||||||||||| | ||| |||| || ||||| || ||| ||||||| ||||| || ||| | |||||||| || |||||| ||| ||||||| ||||| |||
cttcctttattttttatttttttaaaaaaccattccctggaattttggggtggga-aagatgctaaccactttgtcttcttctggtgtctaatttttgcagAGTGTTCCTATGCAATCTGGGCAGACTCCACCTTTGCTACAGTACTTTGGAACACTTCTAACTAGAGGAAAGCTCAATGCATTTGAGTCATTGGAATTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatttatgatgaaatgttggtaacaccaatttttcaactctataattttgcagAGTGTTCCTGTACAAGCTGGACAAACTCCTCCATTGTTACAGTATTTTGGGACTCTTTTGACTAGAGGGAAACTCAATTCATATGAGTCACTGGAACTAT
                   tggtaac  putative branch site (score: 2)
                             aatttttcaactctat  TA-rich tract