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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtttgtccttctggtctctaataacttatatgtgtaggatttcaatctccgaaaaactgacgttttccttttatgcatgcttccttgtatcttatgctcttgtggcagATTCTTAATCCAAACCCAGAAGCTATGTCTAAGCTGATCACAGAAAATGCAAGTGAGGAATTTCTCCATTCGCTGAGTAACTATTGTGCCCTTCAG

Basic information

species Arabidopsis thaliana
transcript AT5G49810.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G49810.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA16G00210.1 (Glycine max), 3'ss of exon 3
gtagtttgtccttctggtctctaataacttatatgtgtaggatttcaatctccgaaaaactgacgttttccttttatgcatgcttccttgtatctt-atgctcttgtggcagATTCTTAATCCAAACCCAGAAGCTATGTCTAAGCTGATCACAGAAAATGCAAGTGAGGAATTTCTCCATTCGCTGAGTAACTATTGTGCCCTTCAG
          ||| | |     |  |   |  |||  | ||  || |  ||  |      |||| |  || ||| ||  || |    || | | || ||    |    | |||||||||||||||| ||||| || ||||||||| |||| |||||||||||||| |||||||| || |||||  ||||||| |||||||| ||||||
----------cttttagcagtcatgagtcttaatgaattgg--tttatccttgggtgttttgacatcatcgtttgattaatacaaatttttctattgattggttccctgtagATTCTTAATCCAAATCCAGATGCAATGTCTAAGATGATAACAGAAAATGCAAGCGAGGAATTCCTGCATTCATTGAGTAATTATTGTGCACTTCAG

upper sequence: AT5G49810.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G28490.1 (Glycine max), 3'ss of exon 3
gtagtttgtccttctggtctctaataacttatatgtgtaggatttcaatctccgaaaaactgacgttttccttttatgcatgcttccttgtatctta-tgctcttgtggcagATTCTTAATCCAAACCCAGAAGCTATGTCTAAGCTGATCACAGAAAATGCAAGTGAGGAATTTCTCCATTCGCTGAGTAACTATTGTGCCCTTCAG
           || | |     |  |  ||  |||  |  | ||| |  ||  |      || | |  || ||| ||  || |    || | | ||  |   ||    |||||||||||||||||| ||||| || ||||||||| |||| |||||||| ||||| |||||||| || |||||  ||||||| |||||| | ||||||
-----------ttttagcagtcatgagttttaatgaatttggttt-atccttgggtgttttggcatcatcatttgattaatacaaatttttctattggttggctccctgcagATTCTTAATCCAAATCCAGATGCAATGTCTAAGATGATAACAGAAAACGCAAGCGAGGAATTCCTGCATTCATTGAGTAATTATTGTTCACTTCAG

upper sequence: AT5G49810.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv12s0035g01920.t01 (Vitis vinifera), 3'ss of exon 4
gtagtttgtccttctggtctctaataacttatatgtgtaggatttcaatctccgaaaaactgacgttttccttttatgcatgcttccttgtatcttatgctcttgtggcagATTCTTAATCCAAACCCAGAAGCTATGTCTAAGCTGATCACAGAAAATGCAAGTGAGGAATTTCTCCATTCGCTGAGTAACTATTGTGCCCTTCAG
      |     |    | |  ||  ||   |     |  | | | |   |      | | |   |||  ||| | ||     | || |||      || |||  | ||||||||| || ||||| || || || ||||||||| |||| ||||||||||| || |||||||||||  |||| |||||||| |||||||| ||||||
------ttctgataaaatattgaactaccactcaccatcagctcttatgtttttggtatcagctttttgacttatttgttgtttcccctgt-----ttgttctctttgcagATTCTCAACCCAAATCCTGATGCAATGTCTAAGATGATTACAGAAAATGCCAGCGAGGAATTTCTATATTCACTGAGTAATTATTGTGCACTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaactgacgttttccttttatgcatgcttccttgtatcttatgctcttgtggcagATTCTTAATCCAAACCCAGAAGCTATGTCTAAGCTGATCACAGAAAATGCAAGTGAGGAATTTCTCCATTCGCTGAGTAACTATTGTGCCCTTCAG
 aactgac  putative branch site (score: 2)
                                         tgctctt  putative PPT
                                  tatcttat  TA-rich tract