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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaccaaacacgttgttctagaatcattgaatgtttcttaattgttcacatcaatgctactttaacgttgtttttttccccatgtcttataacagTGAGAAGAATCAAGCCGAGAATCTGATGATTGTTGACCTTCTAAGGAATGATCTCGGTCGTGTCTGTGAGCCTGGCTCAGTCCATGTACCTAACCTCATG

Basic information

species Arabidopsis thaliana
transcript AT2G28880.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G28880.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA20G31970.1 (Glycine max), 3'ss of exon 15
gtacaccaaacacgttg--ttctagaatcattgaatgt----ttcttaattgttcacatcaatgctactttaacgttgtttttttccccatgtcttataacagTGAGAAGAATCAAGCCGAGAATCTGATGATTGTTGACCTTCTAAGGAATGATCTCGGTCGTGTCTGTGAGCCTGGCTCAGTCCATGTACCTAACCTCATG
  | |   || ||   |  || ||   |  | ||         ||| | ||| |  ||     |  | | |   ||    |   |  |  | ||||    ||| || ||| |||| || || ||  |||||||||||||||||||||||||||| || || ||||||||||| ||||| || || ||||| ||    ||||||
aaatattgaatacccagaattgtaacgtgttagagcaaagcactctaacttgctttcagtggggtgaatctgttgtgaactaacttgctttctcttt---cagCGAAAAGGATCAGGCTGAAAACTTGATGATTGTTGACCTTCTAAGGAATGACCTTGGCCGTGTCTGTGATCCTGGATCTGTTCATGTGCCACGTCTCATG

upper sequence: AT2G28880.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA10G35580.1 (Glycine max), 3'ss of exon 12
--gtacaccaaacacgttgttctagaatcattgaatgt----ttcttaattgttcacatcaatgctactttaacgttgtttttttccccatgtcttataacagTGAGAAGAATCAAGCCGAGAATCTGATGATTGTTGACCTTCTAAGGAATGATCTCGGTCGTGTCTGTGAGCCTGGCTCAGTCCATGTACCTAACCTCATG
  |||  | | |  |    || ||  ||  |  ||        ||| | ||| |   |     |  | | |   ||    |   |  |  | ||||    ||| || ||| |||| || || || ||||||||||||||||||||||||||||| || || ||||| ||||| ||||| || || ||||| ||    ||||||
aagtattcaatatccagaattgtaacatgttaaaacaaagcactctaacttgcttttagttgggtgaatctgttgtgaactaacttgctttctcttt---cagCGAAAAGGATCAGGCTGAAAACCTGATGATTGTTGACCTTCTAAGGAATGACCTTGGCCGTGTTTGTGATCCTGGATCTGTTCATGTGCCACGTCTCATG

upper sequence: AT2G28880.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv13s0019g04170.t01 (Vitis vinifera), 3'ss of exon 12
-------gtacaccaaacacgttgttctagaatcattgaatgtttcttaattgttcacatcaatgctactttaacgttgtttttttccccatgtcttataacagTGAGAAGAATCAAGCCGAGAATCTGATGATTGTTGACCTTCTAAGGAATGATCTCGGTCGTGTCTGTGAGCCTGGCTCAGTCCATGTACCTAACCTCATG
        |  |   || ||  |||| | || ||    |||  |  ||  |    |  |  | || | | |   | |    |   || |  |  || |  ||||||| ||  |||| || || ||||||||||||||||| |||||||| ||||| || |||||||||||||| ||||| ||  | ||||| |||   || |||
tacaaatatctaatgaagacaatgtttttgagtccaaaaataataatttttaaagcctaata-tgttgcct-gccataaactaactctctcttcctca--acagTGAAAAAGATCAGGCTGAAAATCTGATGATTGTTGATCTTCTAAGAAATGACCTTGGTCGTGTCTGTGAACCTGGATCTATTCATGTTCCTTGTCTTATG

upper sequence: AT2G28880.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv13s0019g04180.t01 (Vitis vinifera), 3'ss of exon 11
-gtacaccaaacacgttgttctagaatcattgaatgtttcttaattgttcacatcaatgctactttaac--gttgtttttttccccatgtcttataacagTGAGAAGAATCAAGCCGAGAATCTGATGATTGTTGACCTTCTAAGGAATGATCTCGGTCGTGTCTGTGAGCCTGGCTCAGTCCATGTACCTAACCTCATG
  |  | | |     | ||    |    ||  ||| ||  |    | ||  |||  ||  |   | |||       |    ||   |  | |   |||||||| ||| |||| || || ||| ||||||||||||| || || |||||| |||| ||||||||||| |||   || || || ||||||||    ||||||
aatctagctattttttggtgtacgtgcaatacaattttgttatgatttttgcatgcattgtttgtaaactaacacgtacgctctttaattatctgaacagTGAAAAGGATCAGGCTGAAAATTTGATGATTGTTGATCTGCTGAGGAATAATCTGGGTCGTGTCTGCGAGGTGGGTTCTGTGCATGTACCCCTTCTCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgttcacatcaatgctactttaacgttgtttttttccccatgtcttataacagTGAGAAGAATCAAGCCGAGAATCTGATGATTGTTGACCTTCTAAGGAATGATCTCGGTCGTGTCTGTGAGCCTGGCTCAGTCCATGTACCTAACCTCATG
                   ctttaac  putative branch site (score: 3)
                           ttgtttttttccccat  CT-rich tract
                           ttgttttttt  TA-rich tract