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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcctctctctttggccctttctatgaataaaagcattttatcatttaatatccctaagagaaacagatttatggttgtgcatttttcttcttatagACTGTCAAAAGTTACAAGAGAAGGAAAATATGTAGCATCAGATGTTCCAAGGCAATTGGTGTATGGTACTATGGTGTATGTGAGACAGTCTATTGTGTCA

Basic information

species Arabidopsis thaliana
transcript AT2G35690.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA11G03800.1 (Glycine max), 3'ss of exon 6
gtcctctctctttggccctttctatgaataaaagcattt-tatcatt-taatatccctaagaga--aacagatttatggttgtgcatttttcttcttatagACTGTCAAAAGTTACAAGAGAAGGAAAATATGTAGCATCAGATGTTCCAAGGCAATTGGTGTATGGTACTATGGTGTATGTGAGACAGTCTATTGTGTCA
      | | ||        | | | ||    ||  ||| || ||||    | |  | || |||   |  |  | |  | | ||   ||||  |||   ||  | ||| | ||||| ||||||||||||||||||   ||| |||||||||| ||||| || ||||||||||||||  |||||||||||   || ||  | 
-aagaatgtgttgaagtgaatgtgtcaaagggagtgtttctagcattgctcttttgccaatagattcatggggtaactgctctgttcttttaatctaccagGGTTTCACAGGTTACCAGAGAAGGAAAATATGTAAGCTCAAATGTTCCAAGACAATTAGTTTATGGTACTATGGTAAATGTGAGACAGAAAATCGTAGCT

upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA14G14990.1 (Glycine max), 3'ss of exon 5
gtcctctctctttggccctttctatgaataaaagcattt-tatcatt-taatatccctaagaga--aacagatttatggttgtgcatttttcttcttatagACTGTCAAAAGTTACAAGAGAAGGAAAATATGTAGCATCAGATGTTCCAAGGCAATTGGTGTATGGTACTATGGTGTATGTGAGACAGTCTATTGTGTCA
      | | ||        | | | ||    ||  ||| || ||||    | |  | || |||   |  |  | |  | | ||   ||||  |||   ||  | ||| | ||||| ||||||||||||||||||   ||| |||||||||| ||||| || ||||||||||||||  |||||||||||   || ||  | 
-aagaatgttttgaagtgaatgtgtcaaagggagtgtttctagcattgctcttttgccaatagattcatggggtgactgctctgttcttttaatctaccagGGTTTCACAGGTTACCAGAGAAGGAAAATATGTACGCTCAAATGTTCCAAGACAATTAGTTTATGGTACTATGGTAAATGTGAGACAGAAAATCGTAGCT

upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA01G41600.1 (Glycine max), 3'ss of exon 6
gtcctctctctttggccctttctatgaataaaagcattt-tatcatt-taatatccctaa--gagaaacagatttatggttgtgcatttttcttcttatagACTGTCAAAAGTTACAAGAGAAGGAAAATATGTAGCATCAGATGTTCCAAGGCAATTGGTGTATGGTACTATGGTGTATGTGAGACAGTCTATTGTGTCA
      | | ||        | | | ||  | ||  ||| || ||||    | |  | ||  |    |  |  | || | |  |   ||||  ||    ||  | ||| | ||||| ||||||||||||||||||   ||  |||||||||| ||||| || ||||||||||||||  ||||||||||    |||||  | 
-aagaatgtgttaaaatgaatgtgtcaaagagagtgtttctagcattgctcttttgccaactggttcatggggtgattgctcggttcttttaatccaccagGGTTTCACAGGTTACCAGAGAAGGAAAATATGTACACTCCAATGTTCCAAGACAATTAGTTTATGGTACTATGGTAAATGTGAGACAAAAAATTGTAGCT

upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA05G04940.1 (Glycine max), 3'ss of exon 6
------gtcctctctctttggccctttctatgaataaaagcattttatcat-ttaatatccctaagagaaacagatttatggt-tgtgcatttttcttcttatagACTGTCAAAAGTTACAAGAGAAGGAAAATATGTAGCATCAGATGTTCCAAGGCAATTGGTGTATGGTACTATGGTGTATGTGAGACAGTCTATTGTGTCA
       |    |  | |    | |||  |   |||    ||||  |   |  | || |   || |   |  ||||| | ||  ||    |||||  |||   ||  | ||| | || ||||| |||||||||||||||  |||   ||||||| | ||||| || |||||||||||||| ||||| |||||  | ||||| || 
ctgaacatatagtaacctgactctttttcactcata----cattgcagtgtgcttatctttttatgttga-tagattcaggggatgactctttttaatctaccagGGTTTCACAGGTAACAAGGGAAGGAAAATATGTACAATCCAGTGTTCCACGACAATTAGTCTATGGTACTATGGTATATGTAAGACAAACAATTGTATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catttaatatccctaagagaaacagatttatggttgtgcatttttcttcttatagACTGTCAAAAGTTACAAGAGAAGGAAAATATGTAGCATCAGATGTTCCAAGGCAATTGGTGTATGGTACTATGGTGTATGTGAGACAGTCTATTGTGTCA
 atttaat  putative branch site (score: 4)
                                    tgcatttttcttctt  putative PPT
                                       atttttcttcttata  TA-rich tract