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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacacatatttgcttctagtcattagtttattaatttagacaaataaagatataatctaacgcattcatcgttagtgcagTTGGTTCTTCGGTTTGCCAATCGCTTGTTTTTGCCACTATGGAACCGCGACAATATTGCAAACGTACAG

Basic information

species Arabidopsis thaliana
transcript AT3G27300.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G27300.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G130230_T03 (Zea mays), 3'ss of exon 6
gtaacacatatttgcttctagtcattagtttattaatttagacaaataaagatataatc-taacgcattcatcgttag--tgcagTTGGTTCTTCGGTTTGCCAATCGCTTGTTTTTGCCACTATGGAACCGCGACAATATTGCAAACGTACAG
||||   || |    || |    | | | ||   | || |  ||||||    | ||||  |     |  ||   | |     ||| | |||||||| |||||||| || || || ||||| || |||||||||||||||||||  ||  |||||
gtaatggatgtaacattttgtcaacttgctttacatttca--caaatacttgtctaattattttttaaccaatatcatgtcacagCTTGTTCTTCGTTTTGCCAACCGATTATTCTTGCCTCTTTGGAACCGCGACAATATTGATAATATACAG

upper sequence: AT3G27300.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA16G06850.1 (Glycine max), 3'ss of exon 6
-------gtaac-acatatttgcttctagtcattagtttattaatttagacaaataaagatataatctaacgcattcatcgttagtgcagTTGGTTCTTCGGTTTGCCAATCGCTTGTTTTTGCCACTATGGAACCGCGACAATATTGCAAACGTACAG
        | |  | | | | ||||||  |  ||  || || | ||| | | ||| |  | ||    | ||   |   |  |    ||||||||| ||||| ||||| ||||| || || |||||||| |||||||||||||| ||||  |||||||||
gtaataaatgattatacaatggcttctt-tgtttgtttcatgagttttgcctaatgatta-atccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAACGTACAG

upper sequence: AT3G27300.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA19G24250.2 (Glycine max), 3'ss of exon 6
-------gtaac-acatatttgcttctagtcattagtttattaatttagacaaataaagatataatctaacgcattcatcgttagtgcagTTGGTTCTTCGGTTTGCCAATCGCTTGTTTTTGCCACTATGGAACCGCGACAATATTGCAAACGTACAG
        | |  | | | | |||||| ||  ||  || || ||||| | | ||| |  | ||    | ||   |   |  |    ||||||||| ||||| ||||| ||||| || || |||||||| |||||||||||||| ||||  || ||||||
gtaataaatgattatacaatggcttcttgt--ttgtttcatgaattttgcctaatgatta-atccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAATGTACAG

upper sequence: AT3G27300.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ23968 (Selaginella moellendorffii), 3'ss of exon 5
gtaacacatatttgcttctagtcattagtttattaatttagacaaataaagatataatctaacgcattcatcgttagtgcagTTGGTTCTTCGGTTTGCCAATCGCTTGTTTTTGCCACTATGGAACCGCGACAATATTGCAAACGTACAG
                                |    ||  |    |    ||      | |     || |  |   | ||| | ||  | |||||||| |||||||| ||| | ||||| ||||| || || |||||||||||||| |||
-------------------------------gtagggttgcagtcgttgtcattcgtattgataagctcgtgttc--tccagCTTGTGATGCGGTTTGCAAATCGCTTTTTTGTTCCACTTTGGAATCGTGATAATATTGCAAACGTCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttattaatttagacaaataaagatataatctaacgcattcatcgttagtgcagTTGGTTCTTCGGTTTGCCAATCGCTTGTTTTTGCCACTATGGAACCGCGACAATATTGCAAACGTACAG
                             atctaac  putative branch site (score: 2)
     ttaatttagacaaata  TA-rich tract