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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAGgttttactaaaagttcttcttatgtatttttttttgtttcctcgttggacgttttcttacaagctttttctaagctatctgtatgtttcgtag

Basic information

species Arabidopsis thaliana
transcript AT5G46210.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G46210.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os03g57290.1 (Oryza sativa), 5'ss of exon 11
GTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAGgttttactaaaagttcttctta-tgtatttttttttgtttcctcgttggac-gttttcttacaagctttttctaagctatctgtatgtttcgtag
 || |||||||||||||| || |||||||| || || || |||||||| ||||||||||||||    | |   |||||    | | | ||| ||     |   |  ||  |     | | |  ||  |  ||   || | ||| | | | |  |||
CTATTGGCCAACATATCCACCAATGGATGTGAAACTCCCCCATGAACTTAATGTCTATCAGgtcaggccat--gttctcaaaactatgtttgttggcagtaaatatttatattaactgcctggaaattaattt--agttttctatttttctgatag

upper sequence: AT5G46210.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA05G27240.1 (Glycine max), 5'ss of exon 11
GTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAGgttttactaaaagttcttcttatgtatttttttttgtttcctcgttggacgttttcttacaagctttttctaagctatctgtatgtttcgtag-------------
| ||||||||||||||||||| ||||||||||  |||||||||||| | ||||| || |||||| | |   | || ||  | |   |||| | |||      | ||     | | | ||    | ||    | |  |     | | |||| |               
GCACTGGCCAACATATCCGCCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAGgttctgc---acgtgctagtgactgatttctcttttaactgtggtct--tggtattttgagtgattcccttgacatggtcctttctttcctctatcgggcattcag

upper sequence: AT5G46210.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA15G10030.2 (Glycine max), 5'ss of exon 11
GTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAGgttttac--------taaaagttcttctta-tgtatttttttttgtttcctcgttggacgttttcttacaagctttttctaagctatctgtatgtttcgtag
||||||||| |||||||| || ||||||||||  |||||||||||| | ||||| || ||||||   |        | || | |||| | | || |  | |  ||| | | |   ||       |   |    | ||| ||   |  | | | |  |||    
GTACTGGCCGACATATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAGgttcagcacaaaccatgaatgctcttgtaactgcaggtgtccttgatacttgagtgacttccctgacatggtcctttcctttccattatttttccttcag--

upper sequence: AT5G46210.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: EFJ14633 (Selaginella moellendorffii), 5'ss of exon 11
GTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAGgttttactaaaagttcttcttatgtatttttttttgtttcctcgttggacgttttcttacaagctttttctaagctatctgtatgtttcgtag
||| ||||| || || |||||||||||| ||   |||||||||||||| ||||||||||||||    |     |||||   |||  |  ||    | ||   |   | | | ||| ||  ||                                
GTATTGGCCTACGTACCCGCCTATGGATATTCGTCTTCCTCATGAACTCAATGTCTATCAGgt---gcctcgtgttctggctatcaaaattcgcgttttgatttaattgtcattt-ctcgcag-------------------------------

upper sequence: AT5G46210.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: EFJ26297 (Selaginella moellendorffii), 5'ss of exon 11
GTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAGgttttactaaaagttcttcttatgtatttttttttgtttcctcgttggacgttttcttacaagctttttctaagctatctgtatgtttcgtag
||| ||||| || || |||||||||||| ||   |||||||||||||| ||||||||||||||    |     |||||   |||  |  ||    | ||   |   | | | ||| ||  ||                                
GTATTGGCCTACGTACCCGCCTATGGATATTCGTCTTCCTCATGAACTCAATGTCTATCAGgt---gcctcgtgttctggctatcaaagttcgcgttttgatttaattgtcattt-ctcgcag-------------------------------

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|164116687|gb|ES001014.1|ES001014
EST:     GCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAG                         GATATCTTCAAAGAGTTCTATTTAAGCAAGTACAGTG
genomic: GCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAGgttttactaa ... tgtttcgtagGATATCTTCAAAGAGTTCTATTTAAGCAAGTACAGTG