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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGATCATAAAAGACCCATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATGgtaattcgatattttcttttggtttttgtttgtttctcgtctgtgcttataattcctcaattcacttctttactctgctggatattag

Basic information

species Arabidopsis thaliana
transcript AT5G17060.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA01G43910.2 (Glycine max), 5'ss of exon 6
GAGATCATAAAAGACCCATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATGgtaattcgatattttcttttggtttttgtttgtttctcgtctgtgcttataattcctcaattca--cttctttactctgctggatattag----------------
   |||||||| |||||||| ||||| || ||| ||||  |||||||||| |||||||||||| ||||| |  | |  || |||||  ||||| | ||| |    |  ||   |  | | ||| || | |   || | |   |  |||||||| |                 
ACAATCATAAATGACCCATTTATGCTCAATAGTGTCATCTTGGTGTTTGCCAACAAACAGGACCTGgta-tgtgtttgttactttt--tttttatctgtgttctcttagt---tgcattacctgaaattaaggttatctctacgactggatatcacataggagccaaacaca

upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G09790.3 (Glycine max), 5'ss of exon 4
GAGATCATAAAAGACCCATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATGgtaattcgatattttcttttggtttttgtttgtttctcgtctgtgcttataattcctcaattcacttctttactctgctggatattag-------------------
   |||||||| || ||||| |||||  ||||||||||  |||||||||| |||||||||||| |||||      | | ||  |||| |   ||||| |||  | |  |||    ||| |     |||  |||| | | |  |   || || ||                   
ACAATCATAAATGATCCATTTATGCTCCACAGTATCATCTTGGTGTTTGCCAACAAACAGGACCTGgta------tgtctttatttgatcggtgtttttttggc-tgagtgagcttaaatttatgattatcttcatgagtaaggatgaaatcagagccaaataatgtgaattg

upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA12G02110.1 (Glycine max), 5'ss of exon 5
GAGATCATAAAAGACCCATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATGgtaattcgatattttcttttggtttttgtttgtttc-tcgtctgtgcttataattcctcaattcacttctttactctgctggatattag-------------
    ||||||| || || || |||||  ||||||||||  |||||||||| |||||||||||| |||||  ||   |||   | ||| ||  ||||| ||     |  || ||| | |  |    ||||  |||| | | |  |   || || ||             
ACAGTCATAAATGATCCGTTTATGCTCCACAGTATCATCTTGGTGTTTGCCAACAAACAGGACCTGgtatgtcttcattacttcttgattggtgttttttcggctgaatgagctaaca--tatataattatcttcatgagtaaggatgaaatcagagccaaataatgt

upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S37_304V6.1 (Physcomitrella patens), 5'ss of exon 5
GAGATCATAAAAGACCCATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATGgtaattcgatattttcttttggtttttgtttgtttctcgtctgtgcttataattcctcaattcacttctttactctgctggatattag-------------
 | |||||||| || ||| | |||   |||||    ||||| ||||||||||||||||| ||||||||| | |   ||| |   | |  ||     |       || | ||      || | ||  |     | ||   ||| |||      ||             
CAAATCATAAACGATCCACTGATGAGGAACAGCGCAATTCTTGTGTTTGCAAACAAACAAGACATGgtagtgcc-cattctgagtagaattgatgctaccgaatgtttatgaaatagatgcatcggtgatgctattccatctactgtcgtcgagttcatatgcttgc

upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S91_59V6.1 (Physcomitrella patens), 5'ss of exon 5
GAGATCATAAAAGACCCATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATGgtaatt-cgatattttcttttggtttt------------tgtttgtttctcgtctgtgcttataattcctcaattcacttctttactctgctggatattag--
 |  |||| || || ||  | |||   || ||   ||| || ||||||||||||||||||||||||||||   || |   ||| |   |||              | ||     |    ||| ||| |  |||| |    ||| || |||  |   ||   || | |  
AATGTCATCAATGATCCGCTAATGAGGAATAGCGCCATCCTTGTGTTTGCAAACAAACAGGACATGgtaagcgcgtttacttcctgcagttaccacaccagcaaatattaacaacagaactgggctgaggattctttttgtcagttttttgtttcact---tacttgac

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|86078395|gb|DR374152.1|DR374152
EST:     CATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATG                         AGAGGAGCCATGTCACCGAGAGAAGTATGTGAAGGGTTAGGCTTATTTGAT
genomic: CATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATGgtaattcgat ... tggatattagAGAGGAGCCATGTCACCGAGAGAAGTATGTGAAGGGTTAGGCTTATTTGAT
EST: gi|86081133|gb|DR376890.1|DR376890
EST:     CATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATG                         AGAGGAGCCATGTCACCGAGAGAAGTATGTGAAGGGTTAGGCTTATTTGAT
genomic: CATTCATGCTAAACAGTATCATTCTGGTGTTTGCAAACAAACAGGACATGgtaattcgat ... tggatattagAGAGGAGCCATGTCACCGAGAGAAGTATGTGAAGGGTTAGGCTTATTTGAT