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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCACGAATGGCTGCACTCGATTTCCTTGTGTGTGACGAAAGCGATGTTTTCGTTACCAACAATAACGGAAACATGGCGAGAATATTAGCAGGTCGAAGgtagttaaattaaccatagctaatctttcttctttctgcttcatttctgtttttaaggttgttagctctttgtgttgaatgatttcttggttttatgtag

Basic information

species Arabidopsis thaliana
transcript AT1G20550.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G20550.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA06G02110.1 (Glycine max), 5'ss of exon 8
CTTCACGAATGGCTGCACTCGATTTCCTTGTGTGTGACGAAAGCGATGTTTTCGTTACCAACAATAACGGAAACATGGCGAGAATATTAGCAGGTCGAAGgtagttaaattaaccatagctaatctttcttctttctgcttcatttctgtttttaaggttgttagctctttgtgttgaatgatttcttggttttatgtag
|||| || |||||||||||||| ||| |||| ||||| |||||||||||||| || ||||| ||||| ||||| ||||| | ||||||||| || ||||||||  ||   |   |||   | |||||  ||  |  || | || |  | | | ||   |  |||||| | |   | |||   | |  | |          
CTTCTCGCATGGCTGCACTCGACTTCATTGTTTGTGATGAAAGCGATGTTTTTGTAACCAATAATAATGGAAATATGGCAAAAATATTAGCTGGACGAAGgtatgtaccatttacatcttttatcttattttctgttgat-cactgatatctatacc-taattagctttct---tggaactttcttgtag----------

upper sequence: AT1G20550.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA04G02010.1 (Glycine max), 5'ss of exon 9
CTTCACGAATGGCTGCACTCGATTTCCTTGTGTGTGACGAAAGCGATGTTTTCGTTACCAACAATAACGGAAACATGGCGAGAATATTAGCAGGTCGAAGgtagttaaattaaccatagcta-atctttcttctttctgcttcatttctgtttttaaggttgttagctctttgtgttgaatgatttcttggttttatgtag
|||| || |||||||||||||| ||| |||| ||||| ||||| |||||||| || ||||| ||||| ||||| ||||| | |||||| || || ||||||||  |  |  |   | | ||  || ||  ||  |  ||  ||| |  | | | ||   |  |||||| | || |   ||   | |  | |          
CTTCTCGCATGGCTGCACTCGACTTCATTGTTTGTGATGAAAGTGATGTTTTTGTAACCAATAATAATGGAAATATGGCAAAAATATTGGCTGGACGAAGgta--tgcaccatttacatctttattttattttctgttgaatcactgatatctatacc-taattagctttctggg---aactttcttgtag----------

upper sequence: AT1G20550.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv18s0001g00100.t01 (Vitis vinifera), 5'ss of exon 9
CTTCACGAATGGCTGCACTCGATTTCCTTGTGTGTGACGAAAGCGATGTTTTCGTTACCAACAATAACGGAAACATGGCGAGAATATTAGCAGGTCGAAGgtagttaaattaaccatagctaatctttcttctttctgcttcatttctgtttttaaggttgttagctctttgtgttgaatgatttcttggttttatgtag
|| | || ||||||||||| || ||| | || ||||| ||||| ||||| || ||||||||||| || ||||||||||| | ||||||||| || |||||||| |    ||     |      |  ||   | |||  | |  |    |      ||  |   | ||  || ||     |||  | |   ||   || ||
CTGCTCGCATGGCTGCACTTGACTTCATAGTTTGTGATGAAAGTGATGTATTTGTTACCAACAACAATGGAAACATGGCTAAAATATTAGCTGGGCGAAGgta-tgctgttttttttgttctgtgcttgcaccttcaaccttgtcaaggaac---agaattcaaactgcttatgaactttgacatgtctcttcattgcag

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|164166800|gb|ES035146.1|ES035146
EST:     AACATGGCGAGAATATTAGCCGGTCGAAG                         GAGATACTTTGGACATAAACCGACAATTAGACCGAATGCGAAAAAGCTATA
genomic: AACATGGCGAGAATATTAGCAGGTCGAAGgtagttaaat ... ttttatgtagGAGATACTTTGGACATAAACCAACAATTAGACCGAATGCGAAAAAGCTATA