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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaatatatttttaaatccattacatagtctattattggaaagtctgtttaatatgttcacagtgttaaaactaaaaagctacttcgaatcttttgttttgcagTATTCTTCAGTGATGTGGGTGGAGCAACTCTGGACTCTCACCATGGTTTTGTTGTTGAATATGGGAAAGATAGGGATGTTGATTTAG

Basic information

species Arabidopsis thaliana
transcript AT3G18210.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G18210.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os01g31770.2 (Oryza sativa), 3'ss of exon 4
gcaatatatttttaaatccattacatagtctattattggaaagtctgtttaatatgttcacagtgttaaaactaaaaagctacttcgaatcttttgttttgcagTATTCTTCAGTGATGTGGGTGGAGCAACTCTGGACTCTCACCATGGTTTTGTTGTTGAATATGGGAAAGATAGGGATGTTGATTTAG
    ||| || |  | | |  | | |  |  ||    | | | ||    ||  || |||| | | |     ||| |  | |  |  |  | | ||  | | ||||||| |    ||| || ||||||| |||  | ||  | ||||||| |||||||||||| ||||||||||| |||||||||||  | |
--gttatcttatcgactgctatccttgttaaatagaggcagaatca--ctagcattttcaaaatatatttcctatattgattttatgc-tgtgttaatcttcagTATTATATCCTGAGGTTGGTGGAGGAACATTAGATACACACCATGCTTTTGTTGTTGAGTATGGGAAAGACAGGGATGTTGAACTCG

upper sequence: AT3G18210.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G027311_T01 (Zea mays), 3'ss of exon 4
gcaatatatttttaaatccattacatagtc-tat-tattggaaagtctgtttaatatgttcacagtgttaaaactaaaaagctacttcgaatcttttgttttgcagTATTCTTCAGTGATGTGGGTGGAGCAACTCTGGACTCTCACCATGGTTTTGTTGTTGAATATGGGAAAGATAGGGATGTTGATTTAG
      | | |  |   |   ||  | |||  || ||| |   | | | ||| |  ||||       ||||   ||      | ||  |  |    || | |  |||  | |    ||| || ||||||| |||  ||||||| || || | |||| ||||||||||||||||||| |||||||||||  |||
----gttgtctgaatgacttctatgttgtcacatatatcgatcactttatttcagttgtttct--cattaatctta------tgctctgggt----tgatctttagTTCTTTATCCTGAGGTTGGTGGAGGAACATTGGACTCCCATCACGCTTTTATTGTTGAATATGGGAAAGACAGGGATGTTGAACTAG

upper sequence: AT3G18210.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G11180.1 (Glycine max), 3'ss of exon 4
------------------gcaatatatttttaaatccattacatagtctattattggaaagtctgtttaatatgttcacagtgttaaaactaaaaagctacttcg--aatcttttgttttgcagTATTCTTCAGTGATGTGGGTGGAGCAACTCTGGACTCTCACCATGGTTTTGTTGTTGAATATGGGAAAGATAGGGATGTTGATTTAG
                    |||||  |  | | |    |  ||    |  ||||  | |     ||   ||| ||     |  | | |  | |     | | |   |||  |||||| | |||| |||||    || || || ||  |||| ||||| ||||| |||||||||||||| |||||||| |||||||| |||||||| ||||
gtaaatgaagactgctttataatatgatggtgatttggctgaatctatttatattttagaaatgattagctatatttttcattcttacaagacatgttcagtcccttaattgtttgttatacagTCTTCTTTGCAGAAGTTGGCGGGTCAACCCTGGATTCTCATCATGGTTTTGTTGTAGAATATGGTAAAGATAGAGATGTTGACTTAG

upper sequence: AT3G18210.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA09G31060.1 (Glycine max), 3'ss of exon 4
------------------gcaatatatttttaaatccattacata---gtctattattggaaagtctgtttaatatgttcacagtgttaaaac-taaaaagctacttcgaatcttttgttttgcagTATTCTTCAGTGATGTGGGTGGAGCAACTCTGGACTCTCACCATGGTTTTGTTGTTGAATATGGGAAAGATAGGGATGTTGATTTAG
                    |||||  |  | | |  | |  ||     | || | | | || |  |   || | | ||||   |   ||  | |    ||  ||||  |||  |||||| | |||| |||||    || || || ||  |||| ||||| ||||| |||||||||||||| |||||||| |||||||| |||||||| || |
gtaaatgaagactggattataatatcatggtgatttgactgaatctatttgtactttagaaatgattagctatttttttcattcttacaaggcatgttcagtcactt--aattgtttgttatacagTCTTCTTTGCAGAAGTTGGCGGGTCAACCCTGGATTCTCATCATGGTTTTGTTGTAGAATATGGTAAAGATAGAGATGTTGACTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatatgttcacagtgttaaaactaaaaagctacttcgaatcttttgttttgcagTATTCTTCAGTGATGTGGGTGGAGCAACTCTGGACTCTCACCATGGTTTTGTTGTTGAATATGGGAAAGATAGGGATGTTGATTTAG
                    aactaaa  putative branch site (score: 2)
                                        tcttttgtttt  putative PPT
              tgttaaaactaaaaa  TA-rich tract