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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttacgctctgtgaccagtttttgtgaatttttttgacactggaatatttaatctacctatattgatttattggaatgaacaaatctgatttcaacactatgacataagtggaagttctataatgtgacaaaacttatggaggttgattcgcactctcttctcttggaagGTTGGCTACAAAGTGCGGCTTGAAGGAATGAGAGGGAGAGATACACGTCTTCTTTTTTGTACAACTGGTGTTTTACTTAGAAGGTTACTTGTGGATCGTA

Basic information

species Arabidopsis thaliana
transcript AT1G48650.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G48650.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 6
gtaagttttacgctctgtgaccagtttttgtgaatttttttgacactggaatatttaatctacctatattgatttattggaatg-aacaaatctgatttcaacactatgacataagtggaagttctataatgtgacaaaacttatggaggttgattcgcactctcttctcttggaagGTTGGCTACAAAGTGCGGCTTGAAGGAATGAGAGGGAGAGATACACGTCTTCTTTTTTGTACAACTGGTGTTTTACTTAGAAGGTTACTTGTGGATCGTA
                                                             |||  |  |  |||  || | || | | |   || || ||| | | |||        ||  || | |   ||        | |||    | ||| |  |   |           |||||||||||||||| ||||| ||||| |||||||| |||||||| || |||||||| || || ||||| ||  |  |  | || ||  | |||||  | |
-----------------------------------------------------------tcaccccttatacttttgtgaactgcagctagcatgtttgcaaaatt-tgat-------gatcttttcttgagttttgtctatcatgacaatggatgcttatcttt----------agGTTGGCTACAAAGTTCGGCTGGAAGGCATGAGAGGAAGAGATACGCGCCTTCTTTTCTGCACCACTGGAGTCCTGTTGCGGAGATTGTTGGTGGACAGGA

upper sequence: AT1G48650.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA05G34180.1 (Glycine max), 3'ss of exon 6
gtaagttttacgctctgtgaccagtttttgtgaatttttttgacactggaatatttaatctacctatattgatttattggaatgaacaaatctgatttcaacactatgacataagtggaagttctataatgtgacaaaacttatggaggttgattcgcactctcttctcttggaagGTTGGCTACAAAGTGCGGCTTGAAGGAATGAGAGGGAGAGATACACGTCTTCTTTTTTGTACAACTGGTGTTTTACTTAGAAGGTTACTTGTGGATCGTA
                                                                    ||  | | | |   |   | | |    |    |  || |||| ||  |     |    | ||||     ||||||      ||   | |   || |||||   | |||||||| |||||||| || || || || |||| |||||||||||| |||||||||||||| || || ||||| ||| |  | || || ||||||||| | |
-------------------------------------------------------------------gttagtctgtggaccttttccact----tgctgatgct-tgacgtactttagcttatatttatgttcattaacttaaattattttgcttgttttcccttct---gaaagGTTGGATACAAAGTTCGCCTGGAGGGTATGAAAGGGAGAGATACTCGTCTTCTTTTTTGCACCACAGGTGTATTATTGCGGAGATTGCTTGTGGATAGGA

upper sequence: AT1G48650.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 6
gtaagttttacgctctgtgaccagtttttgtgaatttttttgacactggaatatttaatctacctatattgatttattggaatgaacaaatctgatttcaacactatgacataagtggaagttctataatgtgacaaaacttatggaggttgattcgcactctcttctcttggaagGTTGGCTACAAAGTGCGGCTTGAAGGAATGAGAGGGAGAGATACACGTCTTCTTTTTTGTACAACTGGTGTTTTACTTAGAAGGTTACTTGTGGATCGTA
                                                                    ||  ||| | |   |   ||  |    ||   |  || |||  ||  |     |    | ||||     ||||||      ||  || |   || |||||   | |||||||| |||||||| || || || || |||| |||||||||||| |||||||||||||| || || ||||| ||| |  | ||  | ||||||||| | |
-------------------------------------------------------------------gttagtttgtggaccttttcagct----ttctgatgct-tgaagtactttagcttatatttatgttgattaacttaaatttttttgtttgttttcccttct---gaaagGTTGGATACAAAGTTCGTCTGGAGGGTATGAAAGGGAGAGATACTCGTCTTCTTTTTTGCACCACGGGTGTATTATTGCGGAGACTGCTTGTGGATAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctataatgtgacaaaacttatggaggttgattcgcactctcttctcttggaagGTTGGCTACAAAGTGCGGCTTGAAGGAATGAGAGGGAGAGATACACGTCTTCTTTTTTGTACAACTGGTGTTTTACTTAGAAGGTTACTTGTGGATCGTA
                          ggttgat  putative branch site (score: 5)
                                ttcgcactctcttctc  CT-rich tract
              aaaacttat  TA-rich tract