Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatcaatcactacttttttcaaactttttgcttgaattatttatttaatatcatgagggaaaataatatattgaattgaaaatttggaaaagcagACTGATGCATACCAAGCAACTGGGTGCTACAATTTACTCTGCTCTGGATTCGTACAAACCAACAATAAAATTGCAATTGGTGCAGCGATTTCCCCGAGGT

Basic information

species Arabidopsis thaliana
transcript AT5G50150.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G50150.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA06G19020.1 (Glycine max), 3'ss of exon 6
gtaagatcaatcactacttttttcaaactttttgcttgaattatttatttaatatcatgagggaaaataatatattgaattgaaaatttggaaaagcagACTGATGCATACCAAGCAACTGGGTGCTACAATTTACTCTGCTCTGGATTCGTACAAACCAACAATAAAATTGCAATTGGTGCAGCGATTTCCCCGAGGT
|||||    | |||   || || ||  | | ||  || | |   | ||     ||| |||  || |   |||| |||         |||     | |||||||||||||| ||| |||||||||||||||| |||||||| || || ||  | |||||||||||||  || ||||| ||||| || |||||||| || |
gtaagtatta-cacattttcttacatgcctcttttttaattctctcat---gcatc-tgactgatat--atatgttg---------ttt-----aacagACTGATGCATATCAAACAACTGGGTGCTACAACTTACTCTGTTCAGGCTTTATTCAAACCAACAATAGGATAGCAATAGGTGCTGCAATTTCCCCAAGAT

upper sequence: AT5G50150.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA05G02460.1 (Glycine max), 3'ss of exon 6
gtaagatcaatcactacttttttcaaactttttgcttgaattatttatttaatatcatgagggaaaataatatattgaattgaaaatttggaaaagcagACTGATGCATACCAAGCAACTGGGTGCTACAATTTACTCTGCTCTGGATTCGTACAAACCAACAATAAAATTGCAATTGGTGCAGCGATTTCCCCGAGGT
        ||  | | | | | ||   ||| || |||   ||  || |    | |  |     |    |   ||    ||     |||||       |||| |||||||| |||||||| || |||||||| ||||| || || ||||| || ||||||||||| | ||| ||||| || || || || || || || |
------gtaagtagtgcatgtctctttcttcttcctttgtttccttgtaccctcttttctttca---catcttacaacatgtgctatttga-----tagACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTTGTCCAAACCAACAACAGAATAGCAATAGGGGCTGCAATCTCACCAAGAT

upper sequence: AT5G50150.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA17G09450.1 (Glycine max), 3'ss of exon 5
gtaagatcaatcactacttttttcaaactttttgcttgaattatttatttaatatcatgagggaaaataatatattgaattgaaaatttggaaaagcagACTGATGCATACCAAGCAACTGGGTGCTACAATTTACTCTGCTCTGGATTCGTACAAACCAACAATAAAATTGCAATTGGTGCAGCGATTTCCCCGAGGT
|||||        ||   | ||||    | ||   |||  ||  || |    | |  |         | | || || ||    | ||   |      |||| |||||||| |||||||| || |||||||| ||||| || || ||||| || ||||||||||| |  || ||||| || || || || || || || |
gtaagtagtgcatctgtctctttc---ttcttcctttggtttccttgtaccctcttttctt------tcacatctt-aacaatatatgctgtttgatagACGGATGCATATCAAGCAACAGGATGCTACAACTTACTATGTTCAGGATTTGTCCAAACCAACAACAGGATAGCAATAGGGGCTGCAATCTCACCAAGAT

upper sequence: AT5G50150.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv17s0000g08870.t01 (Vitis vinifera), 3'ss of exon 5
gtaagatcaatcactacttttttcaaactttttgcttgaattatttatttaatatcatgagggaaaataatatattgaattgaaaatttggaaaagcagACTGATGCATACCAAGCAACTGGGTGCTACAATTTACTCTGCTCTGGATTCGTACAAACCAACAATAAAATTGCAATTGGTGCAGCGATTTCCCCGAGGT
      | | |  | | || ||| |  || |         |||    |||     ||| |  |||||  |   | | |||||    | |  |   |||||| ||||||||||| || ||||| |||||||| ||||| ||||| || || || ||||| ||||| || || || ||||| || || || || || ||||
-----gtgagtttcaagttcttttactctgtccatcatgcttaaaacttttgccacataacagaaaaacaaggact-aattgc---tcttaatttgcagACCGATGCATACCAGGCCACTGGCTGCTACAACTTACTTTGCTCAGGTTTTGTCCAAACAAACAACAAGATCGCTATTGGGGCTGCAATCTCTCCAAGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttaatatcatgagggaaaataatatattgaattgaaaatttggaaaagcagACTGATGCATACCAAGCAACTGGGTGCTACAATTTACTCTGCTCTGGATTCGTACAAACCAACAATAAAATTGCAATTGGTGCAGCGATTTCCCCGAGGT
  atttaat  putative branch site (score: 4)
                   aaaataatatattgaa  TA-rich tract