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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaactttgcacagaagcagcattgagtttacttatgtgattatgtacgtgtctagtcctcacatacatagagatggttggtgtacacagGTTGTGTGATGAGGCAACGAGTGCGCTGGACAGCACAACAGAGGCAGAGATACTGAACGCACTCAAGGCACTAGCGAGTAACAGGACATCTATCTTCATT

Basic information

species Arabidopsis thaliana
transcript AT5G58270.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G58270.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA14G38800.1 (Glycine max), 3'ss of exon 17
---gtaagtaactttgca---cagaagcagca-ttgagtttacttatgtgattatgtacgtgtctagtcctcacatacatagagatggttggtgtacacagGTTGTGTGATGAGGCAACGAGTGCGCTGGACAGCACAACAGAGGCAGAGATACTGAACGCACTCAAGGCACTAGCGAGTAACAGGACATCTATCTTCATT
   ||  || |   ||||   |  |   | || |  | | ||  |     || |  |   | | |   | |   |  ||| ||         |||    |||||||||||||| || || ||||| || |||||||||||||| ||||||||  | |  ||| | ||| || |||| | |||  |||| || || ||||||
tttgtg-gtcatgctgcattactaatctaacaatctattctaaattctaaataagatgtatttttccacttttaaatcatggatgatccccttgtctttagGTTGTGTGATGAAGCTACAAGTGCTCTTGACAGCACAACAGAAGCAGAGATTTTAAGTGCATTAAAGTCAGTAGCAAATAATCGGACTTCCATATTCATT

upper sequence: AT5G58270.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: Vv06s0004g08350.t01 (Vitis vinifera), 3'ss of exon 20
---gtaagtaactttgcacagaagcagcattgagtttacttatgtgattatgtacgtgtct-agtcctcacata--catagagatggttggtgtacacagGTTGTGTGATGAGGCAACGAGTGCGCTGGACAGCACAACAGAGGCAGAGATACTGAACGCACTCAAGGCACTAGCGAGTAACAGGACATCTATCTTCATT
     | |  |   ||  | |   |    ||   |||  |  | |  ||   |     ||| |  |     ||     ||       |  ||   | |||  | |||||||| || |||||||| || ||||||||||||||| |||||||| | || ||||| ||| || |||| | |||  | || || ||||| || 
tggaaaggggaggatgttctgtcaccattttttttttcttctttttctttccttttcctctcaagcagtgtatgattctaatctcaatctgtcccctcagACTTTGTGATGAAGCTACGAGTGCACTAGACAGCACAACAGAGTCAGAGATATTAAATGCACTGAAGACATTAGCAAATAATCGAACTTCAATCTTTATA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgattatgtacgtgtctagtcctcacatacatagagatggttggtgtacacagGTTGTGTGATGAGGCAACGAGTGCGCTGGACAGCACAACAGAGGCAGAGATACTGAACGCACTCAAGGCACTAGCGAGTAACAGGACATCTATCTTCATT
                     tcctcac  putative branch site (score: 2)
     ttatgta  TA-rich tract