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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCCTGACGCAGGTGGAGGAGATCATCCCCAAGTGGAAGATCGTCCCCACCAAGGACGTCATCGACTCTGCCTTCAAAGACCCCATCAAGCGCGAAAAGgttcaaacgtttgagcaattcaccaatttgtattgtcagaatgcaagattcagacctaatcatgctgcgagatcttgtgtgttttgagcaaagaatgtaggaaaaagagagagagagagagagagagattctgttttctgaaactgttttcttgtgaacaattgagcag

Basic information

species Oryza sativa
transcript LOC_Os05g29974.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g29974.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G306851_T02 (Zea mays), 5'ss of exon 6
GCTCCTGACGCAGGTGGAGGAGATCATCCCCAAGTGGAAGATCGTCCCCACCAAGGACGTCATCGACTCTGCCTTCAAAGACCCCATCAAGCGCGAAAAGgt---tcaaacgtttgagcaattcacc--aatttgtattgtcagaatgcaagattcagacctaatcatgctgcgagatcttgtgtgttttgagcaaagaatgtaggaaaaagagagagagagagagagagagattctgttttctgaaactgttttcttgtgaacaattgagcag
 || || || ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| || ||||| |||||| |||||||||| |||||   | |  |   ||     ||   |  ||||  |  |||  || |    |   ||| | || |     ||  | ||   ||| ||    ||                                                                                 
CCTGCTAACTCAGGTGGAGGAGATCATCCCCAAGTGGAAGATCGTCCCCACCAAGGACGTCATCGACTCCGCATTCAAGGACCCCGTCAAGCGCGAGAAGgtcaatgatgcacatggtttttttttctgaattattgctgtttgattttgcggaacagccatagttgaattgaaatattgcgtgcgtggacag---------------------------------------------------------------------------------

upper sequence: LOC_Os05g29974.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA03G37290.1 (Glycine max), 5'ss of exon 5
GCTCCTGACGCAGGTGGAGGAGATCATCCCCAAGTGGAAGATCGTCCCCACCAAGGACGTCATCGACTCTGCCTTCAAAGACCCCATCAAGCGCGAAAAGgttcaaacgtttgagcaattcaccaatttgtattgtcagaatgcaagattcagacctaatcatgctgcgagatcttgtgtgttttgagcaaagaatgtaggaaaaagagagagagagagagagagagattctgttttctgaaactgttttcttgtgaacaattgagcag
  |  | ||  | || || || || ||||| ||||||||||| || ||||| ||||| |||||||| || ||||| ||||||||    || || || | |||    | ||||     ||     || ||||| |           |||| |   | |||  |||     |  ||||||   ||| | || | |   ||     || | |           ||| |  |||                                       
CATATTAACTAAAGTTGAAGATATAATCCCAAAGTGGAAGATAGTTCCCACAAAGGATGTCATCGATTCAGCCTTTAAAGACCCTGCTAAACGAGAGAGGgt---gaggttt-----atattgtaaattgtaat---------tgagatgcttgcttaa--atgacttaaagtcttgttgatttagtgctagg---gttaactaatgtgcctcttcctatgagggtcattgcag-----------------------------------
















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|29638996|gb|CB644005.1|CB644005
EST:     AGACCCCATCAAGCGCGAAAAG                         ATCAGGAAGAACAAGCTGATCTACCAGGACAAGCCCAGGCTGAAGACGGCG
genomic: AGACCCCATCAAGCGCGAAAAGgttcaaacgt ... aattgagcagATCAGGAAGAACAAGCTGATCTACCAGGACAAGCCCAGGCTGAAGACGGCG
EST: gi|58609664|gb|CK037697.1|CK037697
EST:     CCAAGGACGTCATCGACTCTGCCTTCAAAGACCCCATCAAGCGCGAAAAG                         ATCAGGAAGAACAAGCTGATCTACCAGGACAAGCCCAGGCTGAAGACGGCG
genomic: CCAAGGACGTCATCGACTCTGCCTTCAAAGACCCCATCAAGCGCGAAAAGgttcaaacgt ... aattgagcagATCAGGAAGAACAAGCTGATCTACCAGGACAAGCCCAGGCTGAAGACGGCG
EST: gi|38469389|gb|CF953520.1|CF953520
EST:     CCAAGGACGTCATCGACTCTGCCTTCAAAGACCCCATCAAGCGCGAAAAG                         ATCAGGAAGAACAAGCTGATCTACCAGGACAAGCCCAGGCTGAAGACGGCG
genomic: CCAAGGACGTCATCGACTCTGCCTTCAAAGACCCCATCAAGCGCGAAAAGgttcaaacgt ... aattgagcagATCAGGAAGAACAAGCTGATCTACCAGGACAAGCCCAGGCTGAAGACGGCG
EST: gi|29656345|gb|CB652620.1|CB652620
EST:     CCAAGGACGTCATCGACTCTGCCTTCAAAGACCCCATCAAGCGCGAAAAG                         ATCAGGAAGAACAAGCTGATCTACCAGGACAAGCCCAGGCTGAAGACGGCG
genomic: CCAAGGACGTCATCGACTCTGCCTTCAAAGACCCCATCAAGCGCGAAAAGgttcaaacgt ... aattgagcagATCAGGAAGAACAAGCTGATCTACCAGGACAAGCCCAGGCTGAAGACGGCG