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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacagctcttgaactctctgtgacacaaacacagttttgcgttattcaaaaacaggaacctagtctcggtctgaatgcttcttgacagcttgctttttttcacttgcttctccgaatcagGTTACATATGAGACGACTGGATTTCTAGAGAAGAATAGAGACTTGTTGCATTCGGATTCTATTCAACTTTTGTCCTCTTGTTCTTGCCTCCTTCCTCAAG

Basic information

species Arabidopsis thaliana
transcript AT3G19960.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 16
gtaacagctcttgaactctctgtgacacaaacacagttttgcgttattcaaaaacaggaacctagtctcggtctgaatgcttcttgacagcttgctttttttcacttgcttctccgaatcagGTTACATATGAGACGACTGGATTTCTAGAGAAGAATAGAGACTTGTTGCATTCGGATTCTATTCAACTTTTGTCCTCTTGTTCTTGCCTCCTTCCTCAAG
             |        | ||        | ||||   || ||  ||||    ||  | || || |  ||  ||| |    |||  ||| || ||  ||||| || |    | |||||| |  ||||| || ||||| |||||||||||||| ||||| ||||| || | |||||| ||||||||| | || |||||  | ||||  || || ||| 
----------aaaaggggaaaataacgtgtttttatttttatttttttgtaaaa----aaatttgtatctggttggctgcctt---acattttgattgttc-cactttctcc----attcagGTCATGTATGATACCACTGGGTTTCTAGAGAAGAACAGAGATTTGTTACACTTGGATTCCATTCAACTTCTATCTTCTTGCACATGCCATCTGCCCCAAA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcggtctgaatgcttcttgacagcttgctttttttcacttgcttctccgaatcagGTTACATATGAGACGACTGGATTTCTAGAGAAGAATAGAGACTTGTTGCATTCGGATTCTATTCAACTTTTGTCCTCTTGTTCTTGCCTCCTTCCTCAAG
              tcttgac  putative branch site (score: 3)
                       cttgctttttttcact  putative PPT
                            tttttttca  TA-rich tract