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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGTCTTCGGTATCTTCACGAAGAGTGCAGAGTTGGCTGTATTGTCCACAGAGACATGCGTCCTAACAACATCCTCATCACTCATGATAATGAGCCACTGgtatgtataaatatggtcttgctcattcatcgtaacagcagatatccactgtttcatatgctttttcgtcctgagtcaactttgataatatcatcag

Basic information

species Arabidopsis thaliana
transcript AT3G13690.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G13690.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os01g41870.1 (Oryza sativa), 5'ss of exon 6
AGGTCTTCGGTATCTTCACGAAGAGTGCAGAGTTGGCTGTATTGTCCACAGAGACATGCGTCCTAACAACATCCTCATCACTCATGATAATGAGCCACTGgtatgtataaatatggtcttgctcattc-atcgtaacagcagatatcca--ctgtttcatatgcttttt--cgtcctgagtcaactttgataatatcatcag
||| || |||||| | || ||||| ||||||||||| |||||  ||||  | |||||| | || |||||||||||  | || |||||| ||||||||||||||||      | |    ||||  |||  |  |||| |  || | | ||  ||||||   | | | | |   ||      |    |||| |  | | ||   
AGGGCTGCGGTATTTGCATGAAGAATGCAGAGTTGGTTGTATAATCCATCGTGACATGAGACCAAACAACATCCTTGTTACACATGATTATGAGCCACTGgtatggtgtgctctccctttgcctattttagagtaatataagtttttcaatctgtttgggacgttatatattgtttctgatatcatttgttctttttata--

upper sequence: AT3G13690.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: EFJ05818 (Selaginella moellendorffii), 5'ss of exon 6
AGGTCTTCGGTATCTTCACGAAGAGTGCAGAGTTGGCTGTATTGTCCACAGAGACATGCGTCCTAACAACATCCTCATCACTCATGATAATGAGCCACTGgta---tgtataaatatggtcttgctcattcatcgtaacagcagatatccactgtttcatatgctttttcgtcctgagtcaactttgataatatcatcag
|||  | |||||||| ||||| || ||| |||| ||||| ||||| |||||||||||||||||||||||||| ||  | || |||||  | || ||  |||||   || ||   ||||     || |       ||  | |      ||||                                                 
AGGATTACGGTATCTGCACGAGGAATGCCGAGTCGGCTGCATTGTTCACAGAGACATGCGTCCTAACAACATTCTTCTAACACATGACTACGAACCTATGgtaagttgcattgttatgaaagagcacgcgtgaagttccggttttgttccag------------------------------------------------

upper sequence: AT3G13690.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: EFJ34463 (Selaginella moellendorffii), 5'ss of exon 6
AGGTCTTCGGTATCTTCACGAAGAGTGCAGAGTTGGCTGTATTGTCCACAGAGACATGCGTCCTAACAACATCCTCATCACTCATGATAATGAGCCACTGgtatgt---ataaatatggtcttgctcattcatcgtaacagcagatatccactgtttcatatgctttttcgtcctgagtcaactttgataatatcatcag
|||  | |||||||| ||||| || ||| | || ||||| || || |||||||||||||||||||||||||| ||  | || |||||  | || ||  ||||| ||   ||   ||||     || |       ||  | |      ||||                                                 
AGGATTACGGTATCTGCACGAGGAATGCCGGGTCGGCTGCATAGTTCACAGAGACATGCGTCCTAACAACATTCTTCTAACACATGACTACGAACCTATGgtaagttacattgttatgaaagagcacgcgtgatgttccggttttgttccag------------------------------------------------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|116452044|gb|EG494636.1|EG494636
EST:     GAGACATGCGTCCTAACAACATCCTCATCACTCATGATAATGAGCCACTG                         GTTGGAGATTTTGGTCTAGCAAGATGGCAGCCTGATGGGGAAATGGGTGTA
genomic: GAGACATGCGTCCTAACAACATCCTCATCACTCATGATAATGAGCCACTGgtatgtataa ... atatcatcagGTTGGAGATTTTGGTCTAGCAAGATGGCAGCCTGATGGGGAAATGGGTGTA
EST: gi|164099413|gb|ES206774.1|ES206774
EST:     TCATGATAATGAGCCACTG                         GTTGGAGATTTTGGTCTAGCAAGATGGCAGCCTGATGGGGAAATGGGTGTA
genomic: TCATGATAATGAGCCACTGgtatgtataa ... atatcatcagGTTGGAGATTTTGGTCTAGCAAGATGGCAGCCTGATGGGGAAATGGGTGTA
EST: gi|164049807|gb|ES142874.1|ES142874
EST:     TGCGTCCTAACAACATCCTCATCACTCATGATAATGAGCCACTG                         GTTGGAGATTTTGGTCTAGCAAGATGGCAGCCTGATGGGGAAATGG
genomic: TGCGTCCTAACAACATCCTCATCACTCATGATAATGAGCCACTGgtatgtataa ... atatcatcagGTTGGAGATTTTGGTCTAGCAAGATGGCAGCCTGATGGGGAAATGG