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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAGgtaggaagacttttttcttaagttgtccaacgaatatacttgtttactctaatggtaaataaatagattttgtttttatcttactaaccttgtag

Basic information

species Arabidopsis thaliana
transcript AT1G08720.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G08720.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os03g06410.1 (Oryza sativa), 5'ss of exon 9
GCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAGgtaggaagacttttttcttaagttgtccaacgaat-atacttgtttactctaatggtaaataaatagattttgtttttatcttactaaccttgtag
|| |  || ||||| ||| | || |  |||  ||| |||||||||||||| ||||| ||| |||||||| |  ||||||| |||||||||||||| ||||||    |   |||||         | ||   | | |||  | ||||      || | | |  || |  |      | || | |   |        
GCCAAAGGAATGAATTGCCTCCATATTAGTGTACCAACAATTGTTCATCGGGATCTTAAATCACCAAACTTGCTGGTTGACAACAACTGGAATGTGAAGgtactgtgctctttttacctttacattcattcagtcataagtatttatgagcgtgctga-tcgattggctcaccaatgatgtgaaatag-------

upper sequence: AT1G08720.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os10g29540.1 (Oryza sativa), 5'ss of exon 9
GCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAGgtaggaagacttttttcttaagttgtccaacgaatatacttgtttactctaatggtaaataaatagattttgtttttatcttactaaccttgtag
|| |  || ||||| ||  | || || |||  |||||||||||||||||| ||||| ||| |||||||| |  ||||||| || || ||||  |||||||||   |     |||    ||      |    ||  |  |||||  ||   |   || ||  | ||                             
GCCAGAGGCATGAATTGTCTTCATACTAGTGTACCGACAATTGTTCATCGGGATCTAAAATCACCAAACTTGCTGGTTGACAATAATTGGACCGTTAAGgtatctatctgctttcgagaaccaaagcctgaaagcttgttgttagctaacaaattacatttacag-----------------------------

upper sequence: AT1G08720.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G175563_T01 (Zea mays), 5'ss of exon 9
GCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAGgtaggaagacttttttcttaagt--tgtccaacgaata-tacttgtttactctaatg---gtaaataaatagattttgtttttatcttactaaccttgtag
|| |  || ||||| ||| | ||||| || |  || |||||||||||||| ||||| ||| | |||||| |  ||||||| || || ||||||||||||||  |  ||  ||   |   | |  | |    | |  | || |  || ||   |||    | ||   || ||                             
GCCAAAGGTATGAATTGCCTGCACACTAGCATGCCTACAATTGTTCATCGAGATCTGAAATCTCCAAACTTGCTGGTTGACAATAATTGGAATGTTAAGgtgtgt-gatcttgcccacgattaatatttggccaccaataatcattcacatcaatatatgcaatataacag-----------------------------

upper sequence: AT1G08720.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA10G30070.1 (Glycine max), 5'ss of exon 10
GCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAGgtaggaagacttttttcttaagttgtccaacgaatatacttgtttactctaatggtaaataaatagattttgtttttatcttactaaccttgtag--------
|| | ||| ||||| |||||||||||||| ||||| |||||||||||||| ||||| ||  | ||||| |||||||||||||| ||||||||||||||||||  | || |     || | |  |   |  | || | ||| ||  || || |  |  ||||   ||||           | |  ||   || |         
GCTAGGGGCATGAATTGCTTACACACCAGCACACCTACAATTGTTCATCGAGATCTAAAGTCTCCAAATCTTTTGGTTGATAAGAACTGGAATGTTAAGgtat-atgattgaaaactcatgcaggttatagtatttgcttatt--ctttattattgcataacatgattaaagagcgccataaaaaatagtgcaataaaataa

upper sequence: AT1G08720.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA20G37330.1 (Glycine max), 5'ss of exon 10
GCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAGgtaggaagacttttttcttaagttgtccaacgaatatacttgtttactctaatggta---aataaatagattttgtttttatcttactaaccttgtag-----
|| | ||| ||||| |||||||||||||| ||||| |||||||||||||| ||||| ||  | ||||| |||||||||||||| ||||||||||||||||||  | || |     |||| |  |   |    || | ||| ||   | | || | |    |||| || |   ||   | |    | ||      ||      
GCTAGGGGCATGAATTGCTTACACACCAGCACACCTACAATTGTTCATCGAGATCTAAAGTCTCCAAATCTTTTGGTTGATAAGAACTGGAATGTTAAGgtat-atgattgaaaacttatgcaggttataatatttgcttattctttattatcgcataacataactaaagagtgccataaaa--agtagtgcaataaaataa

upper sequence: AT1G08720.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv14s0030g01440.t01 (Vitis vinifera), 5'ss of exon 9
GCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAGgtaggaagacttttttcttaagtt--gtccaacgaa---tatacttgtttactctaatggtaaataaatagattttgtttttatcttactaaccttgtag-
|||| ||| ||||| || || |||||||||  ||| ||||||||||| || ||| | ||  ||||||| ||  |||||||||| ||||||||||| |||||| |      | ||| | |  ||   |  |   ||   ||   |||     |||  |  |   |   |         |||| | |||| |     | |  
GCAAAGGGTATGAATTGTTTGCACACCAGTTTACCAACAATTGTTCACCGGGATTTGAAGTCACCAAATCTGCTGGTTGATAAGAACTGGAATGTCAAGgtatggcattgtctttttaacatttcatttagacaacagtaggattgggagttctttttttct-tctcttttcccaagttttgtgttacaattgaagcaat

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|116426459|gb|EG469051.1|EG469051
EST:     GTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAG                         GTCGGTGATTTTGGGTTGTCTCGCTTAAAGCACAATACTTTTTTATCCTCC
genomic: GTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAGgtaggaagac ... aaccttgtagGTCGGTGATTTTGGGTTGTCTCGCTTAAAGCACAATACTTTTTTATCCTCC