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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacctgcttctctattaatgtctaaatcatcaatctctttctttagactatcagtgattattttatctcgtgcatttcttgcagTTGGTCCTCCGGTTTGCAAATCGCTTTTTCTTGCCACTTTGGAACCGTGACAATATCGAGAACGTGCAG

Basic information

species Arabidopsis thaliana
transcript AT5G40760.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os04g40874.1 (Oryza sativa), 3'ss of exon 6
gtaacctgcttctctattaatgtctaaatcatcaatctctttctttagactatcag--tgatta-ttttatctcgtgcatttcttgcagTTGGTCCTCCGGTTTGCAAATCGCTTTTTCTTGCCACTTTGGAACCGTGACAATATCGAGAACGTGCAG
||||       || || |  |||| | |   |       |||| |  || ||   |  | | || ||||    |   |   | |  ||| | || || || ||||| || ||||| |||||||| |||||||||||||||||||| || ||  | |||
gtaatgg----ctataattttgtcaagaatgtgggatgatttcctccgaatacttgactaactacttttgaaacaatcgcatttcacagCTTGTGCTTCGTTTTGCCAACCGCTTGTTCTTGCCTCTTTGGAACCGTGACAATATTGATAATATACAG

upper sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA16G06850.1 (Glycine max), 3'ss of exon 6
gtaacctgcttctctattaatgtctaaatcatcaatctcttt--ctttagactatcagtgattattttatctcgtgcatttcttg-cagTTGGTCCTCCGGTTTGCAAATCGCTTTTTCTTGCCACTTTGGAACCGTGACAATATCGAGAACGTGCAG
||||        | ||  |||| ||   |  |   | || |    |||     || | | ||   ||||  |    | | | ||| |||||||| || || ||||||||||| ||||||||||||||||||||||| ||||| || || ||||| |||
gtaataaatgattatac-aatggcttctttgtttgtttcatgagttttgcctaatgattaatccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAACGTACAG

upper sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA19G24250.2 (Glycine max), 3'ss of exon 6
gtaacctgcttctctattaatgtctaaatcatcaatctctttctttagacta-tcagtgattattttatctcgtgcatttcttg-cagTTGGTCCTCCGGTTTGCAAATCGCTTTTTCTTGCCACTTTGGAACCGTGACAATATCGAGAACGTGCAG
||||        | ||  |||| ||   |  |   |   |   ||| | ||| | | | ||   ||||  |    | | | ||| |||||||| || || ||||||||||| ||||||||||||||||||||||| ||||| || || || || |||
gtaataaatgattatac-aatggcttcttgtttgtttcatgaattttgcctaatgattaatccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAATGTACAG

upper sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv14s0171g00490.t01 (Vitis vinifera), 3'ss of exon 6
------------------------------------gtaacctgcttctctattaatgtctaaatcatca-atctctttctttagactatcagtgattattttatctcgtgc-attt---cttgcagTTGGTCCTCCGGTTTGCAAATCGCTTTTTCTTGCCACTTTGGAACCGTGACAATATCGAGAACGTGCAG
                                     |||          || |||  | |   || |   ||  | |  |||  | | || |    | | |   ||  ||| | ||    ||||||||||| || || |||||||||||| | || ||||| || |||||||||||||| || || || || |||
gtaatacatgtatcataaaaattgtgtctttatttgataaaaaaaaataataataaaatgtttgtctttgtatgccctattttgaaatgtctgctgatttctctccttatgccacttacatttgcagTTGGTACTTCGTTTTGCAAATCGCATGTTTTTGCCCCTCTGGAACCGTGACAACATTGATAATGTACAG

upper sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: EFJ23968 (Selaginella moellendorffii), 3'ss of exon 5
gtaacctgcttctctattaatgtctaaatcatcaatctctttctttagactatcagtgattattttatctcgtgcatttcttgcagTTGGTCCTCCGGTTTGCAAATCGCTTTTTCTTGCCACTTTGGAACCGTGACAATATCGAGAACGTGCAG
                                           ||       |      |  | ||     |  | | |  | ||| | ||  | ||||||||||||||||||||  | ||||||||||| ||||| ||||| |  ||||| |||
-------------------------------------gtagggttgcagtcgttgtcattcgtattgataagctcgtgttctccagCTTGTGATGCGGTTTGCAAATCGCTTTTTTGTTCCACTTTGGAATCGTGATAATATTGCAAACGTCCAG

upper sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: EFJ21593 (Selaginella moellendorffii), 3'ss of exon 5
gtaacctgcttctctattaatgtctaaatcatcaatctctttctttagactatcagtgattattttatctcgtgcatttcttgcagTTGGTCCTCCGGTTTGCAAATCGCTTTTTCTTGCCACTTTGGAACCGTGACAATATCGAGAACGTGCAG
                        ||      || ||  | || || |     || ||||      | ||||||    |  | ||| | ||  | ||||||||||||||||||||  | ||||||||||| ||||| ||| | |  ||||| |||
-----------------------gtagggttgcagtcgttgtcattcg-----cattgata-----agctcgtg----ttctccagCTTGTGATGCGGTTTGCAAATCGCTTTTTTGTTCCACTTTGGAATCGTGATAATGTTGCAAACGTCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaatctctttctttagactatcagtgattattttatctcgtgcatttcttgcagTTGGTCCTCCGGTTTGCAAATCGCTTTTTCTTGCCACTTTGGAACCGTGACAATATCGAGAACGTGCAG
                                           catttctt  CT-rich tract
                       agtgattattttat  TA-rich tract