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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatgaattgagaattttggatgagctttatactttagtattttattttttatgtcttctgagacttttgcttttgattgtatgttacagGGTTCAAGAGCCGTGTTAAGTTCTTAAGTGTGCTTGACCCAACAAACCTAACCAACTACATCTCAGAGGTTCTGGATGCAGGGCTTCTTGGTCCATTGTT

Basic information

species Arabidopsis thaliana
transcript AT4G20400.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G20400.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os05g23670.1 (Oryza sativa), 3'ss of exon 8
gtg-atgaattgagaattttg--gatgagctttatactttagtattttattttttatgtcttctgagacttttgcttttgattgtatgt---tacagGGTTCAAGAGCCGTGTTAAGTTCTTAAGTGTGCTTGACCCAACAAACCTAACCAACTACATCTCAGAGGTTCTGGATGCAGGGCTTCTTGGTCCATTGTT
||  ||  | |||  | |     ||| |  ||| |  | | ||| | | |     |  || ||    | | |  ||  |     |   |   | |||| || ||||| || ||||  ||    ||||| || || |||||||    |  |  ||||||||| || ||||| ||||| ||||||||||| ||||||||
gtatatacactgaacaatgcaatgattatttttgtcttctggtaatatgt-----acatcctccagaaatatcactaatagaaattcatctatgcagGATTTAAGAGTCGAGTTACATTTCATAGTGTACTAGATCCAACAAGGACATGCTGCTACATCTCCGAAGTTCTTGATGCTGGGCTTCTTGGACCATTGTT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtattttattttttatgtcttctgagacttttgcttttgattgtatgttacagGGTTCAAGAGCCGTGTTAAGTTCTTAAGTGTGCTTGACCCAACAAACCTAACCAACTACATCTCAGAGGTTCTGGATGCAGGGCTTCTTGGTCCATTGTT
                                    ttttgat  putative branch site (score: 4)
     ttttattttttatgtc  TA-rich tract