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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtactttaaatgttacagactatagtatatacaacaaaacatatgacatcattatttgcttaatcgttttttgtgtgtgttggcgtagGTTATGAGCCGGCATTCATGGAAAGACACGGCTTCACAGCCAAAGATCAAGTTCTTTACTCAAGTGAAAGCTCGACCGCCGACTTTTGTAGCGTTTGTGA

Basic information

species Arabidopsis thaliana
transcript AT5G39960.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G39960.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv16s0022g01890.t01 (Vitis vinifera), 3'ss of exon 8
gtttgtactttaaatgttacag-actatagtatatacaacaaaacatatgacatcattatttgcttaatcgttttttgtgtgtgttggcgtagGTTATGAGCCGGCATTCATGGAAAGACACGGCTTCACAGCCAAAGATCAAGTTCTTTACTCAAGTGAAAGCTCGACCGCCGACTTTTGTAGCGTTTGTGA
||  |||    ||   |  |   | |   |   || |  ||||  ||   |  |   | ||    |   |  |||   | ||  |     |||||||||||| ||||||| ||||||||   |||| |||| || |||||||||| ||| || || ||||| ||||| || || |||||||| || ||| || 
gtcagtatgacaataatccctttagtcctgcccatccttcaaa-tatgcaagttgggttttaatct---ctctttcgctttgcttctctctagGTTATGAGCAGGCATTCTTGGAAAGATCAGGCTGCACAACCCAAGATCAAGTACTTCACCCAGGTGAAGGCTCGGCCCCCAACTTTTGTTGCCTTTATGG

upper sequence: AT5G39960.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv12s0035g02010.t01 (Vitis vinifera), 3'ss of exon 2
gtttgtactttaa--atgttacagactatagtatatacaacaaaacatatgacatcattatttgcttaatcgttttttgtgtgtgttggcgtagGTTATGAGCCGGCATTCATGGAAAGACACGGCTTCACAGCCAAAGATCAAGTTCTTTACTCAAGTGAAAGCTCGACCGCCGACTTTTGTAGCGTTTGTGA
||  |||    ||  || |     | |   |   || |  ||||  || | |  |     |||  |   || ||   | ||  | |     |||||||||||| ||||||| ||||||||   |||| |||| || |||||||||| ||| || || ||||| ||||| || || |||||||| || ||| || 
gtaagtatgacaataatctcttttagtcctgcccatccttcaaa-tatgtaa-gttgggttttaatctgtctttcactctgcttctc--tctagGTTATGAGCAGGCATTCTTGGAAAGATCAGGCTGCACAACCCAAGATCAAGTGCTTCACCCAGGTGAAGGCTCGGCCCCCAACTTTTGTTGCCTTTATGG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaaacatatgacatcattatttgcttaatcgttttttgtgtgtgttggcgtagGTTATGAGCCGGCATTCATGGAAAGACACGGCTTCACAGCCAAAGATCAAGTTCTTTACTCAAGTGAAAGCTCGACCGCCGACTTTTGTAGCGTTTGTGA
                        gcttaat  putative branch site (score: 4)
                 attatttgcttaat  TA-rich tract