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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAGgttagtttgttattcatcccatgataacaggtttgcttgatttttccgtttctgttttcggtagatgcataatgaagctcaattttgttctcttcatgta...

Basic information

species Arabidopsis thaliana
transcript AT1G17220.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G17220.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G007038_T01 (Zea mays), 5'ss of exon 6
ATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAGgttagtttgttattcatcccatgataacaggt--ttgcttgatttttccgtttctgttttcggtagatgcataat-gaagctcaattttgttctcttcatgta
|| |||||| | |  ||||| ||||| ||||| ||  ||||||||||||||||||||||||||||  ||||  | ||    | ||| |  |  |   |   || | || |   ||    |||||  |   |||| | | ||||                       
ATAAGTGCTCTTACTGGGGATAATGTTGATGAACTTCTGGAAACTGTCATGCTTGTTGCAGAGgtacgttt-ctgtttgcacaatgttttccagcaatctattaaattcttttttgaccttttcttttcttgcaaatttgaag-----------------------

upper sequence: AT1G17220.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G383564_T01 (Zea mays), 5'ss of exon 1
----ATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAGgttagtttgttattcatcccatgataacaggt--ttgcttgatttttccgtttctgttttcggtagatgcataat-gaagctcaattttgttctcttcatgta
    || |||||| | |  ||||| ||||| ||||| ||  ||||||||||||||||||||||||||||  ||||  | ||    | ||| |  |  |   |   || | || |   ||    |||||  |   |||| | | ||||                       
CCAGATAAGTGCTCTTACTGGGGATAATGTTGATGAACTTCTGGAAACTGTCATGCTTGTTGCAGAGgtacgttt-ctgtttgcacaatgttttccagcaatctattaaattcttttttgaccttttcttttcttgcaaatttgaag-----------------------

upper sequence: AT1G17220.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA15G40370.1 (Glycine max), 5'ss of exon 6
ATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAGgtta---gtttgttattcatcccatgataacaggtttgcttga-tttttccgtttctgttttcggtagatgcataatgaagctcaattttgttctcttcatgta
|| |||||| | |||||  | ||  | |||||||| ||||||||||| ||||||||||| ||||| |   ||||  | ||  | ||| ||  ||    | |||| | |   |      || ||||       |   | || ||  |  |  || |  | |||     
ATAAGTGCTCTCAAAGGAAAGAACATAGATGATCTTTTGGAAACTGTTATGCTTGTTGCCGAGgtaacttgtttactcttggtgccacgactactaactagcttaagtcactttacacctattttatccctttatctgatcaatttatacgttttaatgttct----

upper sequence: AT1G17220.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA08G18580.1 (Glycine max), 5'ss of exon 7
ATCAGTGCTTTGAAAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAGgtta---gtttgttattcatcccatgataacaggtttgcttga-tttttccgtttctgttttcggtagatgcataatgaagctcaattttgttctcttcatgta
|| |||||| | |||||| | ||| | |||||||| ||||||||||| ||||||||||| ||||| |   ||||  | ||  |  |||||  || |  |  ||| |     |      || ||||       |   |||| ||     |  || |  | |||     
ATAAGTGCTCTTAAAGGGAAGAATATAGATGATCTTTTGGAAACTGTTATGCTTGTTGCTGAGgtaacttgtttactgttggtgtcatgactactgactatcttaagccactttacacctattttatccctttatctaattaattaatacgttttaatgttct----

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|125222740|gb|EL236825.1|EL236825
EST:     GGGAAAAGTGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAG                         CTTCAAGAGTTGAAAGCAAA
genomic: GGGAAAA-TGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAGgttagtttgt ... gctgtttcagCTTCAAGAGTTGAAAGCAAA
EST: gi|47831587|gb|CK121271.1|CK121271
EST:     AAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAG                         CTTCAAGAGTTGAAAGCAAATCCACACAGAAATGCCAAGGGCATTG
genomic: AAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAGgttagtttgt ... gctgtttcagCTTCAAGAGTTGAAAGCAAATCCACACAGAAATGCCAAGGGCATTG
EST: gi|124783950|gb|EH873730.1|EH873730
EST:     GGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAG                         CTTCAAGAGTTGAAAGCAAA
genomic: GGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAGgttagtttgt ... gctgtttcagCTTCAAGAGTTGAAAGCAAA
EST: gi|124836171|gb|EH920610.1|EH920610
EST:     AAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAG                         CTTCAAGAGTTGAAAGCAAATCCACACAGAAATGCCAAGGG
genomic: AAGGGGAAAATGTCGATGATCTGTTGGAAACTGTCATGCTTGTTGCAGAGgttagtttgt ... gctgtttcagCTTCAAGAGTTGAAAGCAAATCCACACAGAAATGCCAAGGG