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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGTGTCATGATATTGGTCGGGAACAAGCAGCAAATAAACCTCTTTTAAAGACTGTGTTCCAGgtatgtgcctgtatgttcttatcaggatgagttatctctgttccgaagtctcaagactgtttgcttttctacatgcaatcag

Basic information

species Arabidopsis thaliana
transcript AT3G13870.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os01g39310.3 (Oryza sativa), 5'ss of exon 6
GTGGTGTCATGATATTGGTCGGGAACAAGCAGCAAATAAACCTCTTTTAAAGACTGTGTTCCAGgtatgtgcctgtatgttcttatcaggatgagttatctctg--ttccgaagtctcaagactgtttgcttttctacatgcaatcag--------------------
|||||||||||| |||||| | ||||| || || || ||||||||||| |||||||| ||||||||  ||   |   || |   ||  ||     || ||| ||  | | ||    |||    ||   | |  | || ||   ||                       
GTGGTGTCATGACATTGGTAGAGAACAGGCTGCGAACAAACCTCTTTTGAAGACTGTTTTCCAGgtcagtttgttagtgctacaatgtgggcttattttctttgattcctgattcttcagtggtggaagatactata-atatcattgtgtctttgtcaacctgaatag

upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: AC196426.3_FGT007 (Zea mays), 5'ss of exon 4
GTGGTGTCATGATATTGGTCGGGAACAAGCAGCAAATAAACCTCTTTTAAAGACTGTGTTCCAGgtatgt-gcctgtatgttcttatcaggatgagttatctctgttccgaagtctcaagactgtttgcttttctacatgcaatcag
|||||||||||| |||||  | ||||| || ||||| || |||||||| |||||||| ||||||| | || |  | |  ||| ||||   ||||     | | ||  |  |  | |      ||| |  || |  |  || ||| ||
GTGGTGTCATGACATTGGCAGAGAACAGGCTGCAAACAAGCCTCTTTTGAAGACTGTTTTCCAGGCAAgttgtttatgagtt-ttattttgatgcaacttttttgacc--atattt------tgtcta-ttctggatgtg-aattag

upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA15G02780.1 (Glycine max), 5'ss of exon 6
GTGGTGTCATGATATTGGTCGGGAACAAGCAGCAAATAAACCTCTTTTAAAGACTGTGTTCCAGgtatgtgcctgtatgttctt-atcaggatgagttatctctgttccgaagtctcaagact-gtttgcttttctacatgcaatcag------
|||||||||||| |||||||| |||||||| |||||||| || |||||||| |||||||| |||||||    |  ||   | || |  |  |  |    | ||   ||  ||   |    | |  | |  ||   | | || | |         
GTGGTGTCATGACATTGGTCGCGAACAAGCTGCAAATAAGCCGCTTTTAAAAACTGTGTTTCAGgtatcattcaataacctattgactacaagcaacagtttccaatctaaaaagttgttatttatctaattgcatgcttgtatttgctttcag

upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 5'ss of exon 6
GTGGTGTCATGATATTGGTCGGGAACAAGCAGCAAATAAACCTCTTTTAAAGACTGTGTTCCAGgtatgtgcctgtatgttcttatcaggatgagttatctctgttccgaagtctcaagactgtttgcttttctacatgcaatcag
||||||||||||||||||||| || || || |||||||| |||||| | || ||||| |||||||||| |   | |   |    || |   ||| |       | | |        ||   | |    || | | | | ||     
GTGGTGTCATGATATTGGTCGTGAGCAGGCTGCAAATAAGCCTCTTCTGAAAACTGTATTCCAGgtatctctttatgc-tgacaattattctgaatctcaagagcttcagttgtctaactttatgatgttatatccttacag----

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|116444534|gb|EG487126.1|EG487126
EST:     CTGGTCGGGAACAAGCAGCAAATAAACCTCTTTTAAAGACTGTGTTCCAG                         GTTATGATGCGGTTGTTTAGTCCGCGGAAGACAACTTTGATGTTTGTTATA
genomic: TTGGTCGGGAACAAGCAGCAAATAAACCTCTTTTAAAGACTGTGTTCCAGgtatgtgcct ... atgcaatcagGTTATGATGCGGTTGTTTAGTCCGCGGAAGACAACTTTGATGTTTGTTATA