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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGACATCCTCTCCAATGGCGGTATCGTTCAAGAAATGGCCCACATCGCCAATGGCCGGGATCAGGGCAACTGCGTCTCACTTCTTCGCGTCAACgtaagcagcaattcatccaagatcaaaacgcaagatatatacgagcatgcgataatgcgcgatgtattgatcgatcccgtttcatgtacaaatatatattgcag

Basic information

species Oryza sativa
transcript LOC_Os04g53540.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g53540.4 (Oryza sativa), 5'ss of exon 10
lower sequence: EFJ19972 (Selaginella moellendorffii), 5'ss of exon 10
TGGGACATCCTCTCCAATGGCGGTATCGTTCAAGAAATGGCCCACATCGCCAATGGCCGGGATCAGGGCAACTGCGTCTCACTTCTTCGCGTCAACgtaagcagcaattcatccaagatcaaaacgcaagatatatacgagcatgcgataatgcgcgatgtattgatcgatcccgtttcatgtacaaatatatattgcag
|||||||| |||||||| || || || || ||||| ||||| ||||||||||| || | |||||  |||||| | ||||| ||||| || ||||||||||||     ||  |   || |    |     ||| | || || |    ||   | |    ||| |   ||  ||| |                         
TGGGACATTCTCTCCAACGGTGGAATGGTGCAAGAGATGGCTCACATCGCCAAAGGACAGGATCCAGGCAACAGTGTCTCTCTTCTCCGTGTCAACgtaagc-----tttcttggagctttcgatcttcgatctcta-gaac---tgaagcttcttcctgtctc--tctttccag-------------------------

upper sequence: LOC_Os04g53540.4 (Oryza sativa), 5'ss of exon 10
lower sequence: EFJ10492 (Selaginella moellendorffii), 5'ss of exon 10
TGGGACATCCTCTCCAATGGCGGTATCGTTCAAGAAATGGCCCACATCGCCAATGGCCGGGATCAGGGCAACTGCGTCTCACTTCTTCGCGTCAACgtaagcagcaattcatccaagatcaaaacgcaagatatatacgagcatgcgataatgcgcgatgtattgatcgatcccgtttcatgtacaaatatatattgcag
|||||||| |||||||| || || || || ||||| ||||| ||||||||||| || | |||||  |||||| | ||||| || || || ||||||||||||     ||  |   || |    |     ||| | || || |      | || |  |      |   |                                
TGGGACATTCTCTCCAACGGTGGAATGGTGCAAGAGATGGCTCACATCGCCAAAGGACAGGATCCAGGCAACAGTGTCTCTCTCCTCCGTGTCAACgtaagc-----tttcttggagctttcgatcttcgatctcta-gaactgaaacttattcctgtctctctttccag------------------------------
















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|58667117|gb|CK055803.1|CK055803
EST:     TCGCCAATGGCCGGGATCAGGGCAACTGCGTCTCACTTCTTCGCGTCAAC                         AGCTCGAACTCGAACCAGAGCAACATGCTGATCCTGCAGGAGAGCTGC
genomic: TCGCCAATGGCCGGGATCAGGGCAACTGCGTCTCACTTCTTCGCGTCAACgtaagcagca ... tatattgcagAGCTCGAACTCGAACCAGAGCAACATGCTGATCCTGCAGGAGAGCTGC
EST: gi|38474223|gb|CF958355.1|CF958355
EST:     TCGCCAATGGCCGGGATCAGGGCAACTGCGTCTCACTTCTTCGCGTCAAC                         AGCTCGAACTCGAACCAGAGCAACATGCTGATCCTGCAGGAGAGCTGCACG
genomic: TCGCCAATGGCCGGGATCAGGGCAACTGCGTCTCACTTCTTCGCGTCAACgtaagcagca ... tatattgcagAGCTCGAACTCGAACCAGAGCAACATGCTGATCCTGCAGGAGAGCTGCACG