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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTTTGCTTCAGGTCTGATGTTGAGCATATCGTTCTTGGATTTGGCTCATAATGCTATAAACTCTATTGGGTTCTTTAAAGCCAACCTCTGGgttagtacttctgtccatcttgtacttcagtggtttttgttattcaaataatatgtttatttatttcacactgaaagtaatatagttttctagtgatgcag

Basic information

species Arabidopsis thaliana
transcript AT3G20870.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20870.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA13G41580.5 (Glycine max), 5'ss of exon 3
GGTTTTGCTTCAGGTCTGATGTTGAGCATATCGTTCTTGGATTTGGCTCATAATGCTATAAACTCTATTGGGTTCTTTAAAGCCAACCTCTGGgttagt-----acttc---tgtc-----catcttgtacttcagtggtttttgttattcaaataatatgtttatttat----ttcacactga--aagtaatatagttttctagtgatgcag
||||||||| | ||| ||||| | |||||||||||||| ||||||||||| |||||| | |||||  | || ||||| |||| |||||| |||||  ||     |||||   ||||     ||  |  |    |||   | ||| |   |   || || |  |   || |    ||    ||||  |  |  |  |  ||   | | ||| ||
GGTTTTGCTGCTGGTTTGATGCTTAGCATATCGTTCTTTGATTTGGCTCACAATGCTTTGAACTCATTGGGCTTCTTGAAAGGCAACCTTTGGgtaggttttgcacttcagctgtcataaacaagtcatctaacagcaatgtttttctcttgtatcatcttctctcttgtgatgttagttctgaccagatgttccatcttctcattcatgtag

upper sequence: AT3G20870.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA15G03820.2 (Glycine max), 5'ss of exon 3
GGTTTTGCTTCAGGTCTGATGTTGAGCATATCGTTCTTGGATTTGGCTCATAATGCTATAAACTCTATTGGGTTCTTTAAAGCCAACCTCTGGgttagt-----acttctgtccatcttg-------tacttcagtggtttttgttattcaaataatatgtttatttat-ttcacactga--aagtaatatagttttctagtgatgcag
||||||||| | ||| ||||| | |||||||||||||| |||||||| || |||||| | |||||  | || ||||| ||||  ||||| |||||  |      ||||| | | ||| |         |  | | ||   | | ||  |    ||  || ||   |  | ||    ||||  || |  |  |  ||   | | ||| ||
GGTTTTGCTGCTGGTTTGATGCTTAGCATATCGTTCTTTGATTTGGCCCACAATGCTTTGAACTCACTGGGCTTCTTGAAAGGAAACCTTTGGgtaggctgcgcacttcag-ctatcataaagaagtcatctaactgcaatgtttttctttcgtatcatcttctctcgtgttagttctgaccaaatgttccatcttctcattcatgtag

upper sequence: AT3G20870.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv06s0004g01860.t01 (Vitis vinifera), 5'ss of exon 3
GGTTTTGCTTCAGGTCTGATGTTGAGCATATCGTTCTTGGATTTGGCTCATAATGCTATAAACTCTATTGGGTTCTTTAAAGCCAACCTCTGGgttagtacttctgtccatcttgtacttcagtg-gtttttgttattcaaataatatgtttatttatttcacactgaaagtaatatagttttc--tagtgatgcag
|| |||||| |||| || ||| |||||||||| ||| | |||||||||||||||||| | ||||| || || ||||| ||||  ||||| ||||| ||   |  | |   ||  ||  || | |     |   | |||    ||| ||   |   | ||| |   |||||  |||    | |||  |    ||||||
GGATTTGCTGCAGGCCTCATGCTGAGCATATCTTTCCTAGATTTGGCTCATAATGCTTTGAACTCCATCGGCTTCTTAAAAGGAAACCTTTGGgtgagctttcttctttgtca-gtgtttaacttcaaatccatcattttgttaacataactccat-tttgattttgaaatcaattgcctattcattgaccatgcag

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|116403230|gb|EG445822.1|EG445822
EST:     TGGCTCATAATGCCATAAACTCTATTGGGTTCTTTAAAGCCAACCTCTGG                         TTTTTCGGTGGTGTGATATTCTTTGCGTGTATTACCAAATTCATACCCGAA
genomic: TGGCTCATAATGCTATAAACTCTATTGGGTTCTTTAAAGCCAACCTCTGGgttagtactt ... agtgatgcagTTTTTCGGTGGTGTGATATTCTTTGCGTGTATTACCAAATTCATACCCGAA