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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCCTCATCTCGCTACAACTTATGCTGCTGTAAATACACTTGTAACTATAGGGAGTGAAAGGGCACTATCATCGGTAAACAGgtaattcttatggcactatgttgactaaatatgcttccatctgtatcatatggttaacaatttctacggtgtaaatcag

Basic information

species Oryza sativa
transcript LOC_Os01g53600.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g53600.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G158562_T03 (Zea mays), 5'ss of exon 4
TTGCCTCATCTCGCTACAACTTATGCTGCTGTAAATACACTTGTAACTATAGGGAGTGAAAGGGCACTATCATCGGTAAACAGgtaattcttatggcactatgttgactaaatatgcttccatctgtatcatatggttaacaatttctacggtgtaaatcag------------------------------------------------------
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TTGCCTCACCTAGCTACGACTTATGCTGCTGTAAATACACTTGTGACAATAGGGAGCGAAAGAGCATTGTCATCAATCAATAGgtaaatctcatggt----tgct--ctaaaacaagatctacaagagtcattttgttaattatgtttaccttgtgggtcaggggcaacctgtacaattttatgctgcagatgaaagatgtatcaggtgctttcag

upper sequence: LOC_Os01g53600.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G158562_T02 (Zea mays), 5'ss of exon 4
TTGCCTCATCTCGCTACAACTTATGCTGCTGTAAATACACTTGTAACTATAGGGAGTGAAAGGGCACTATCATCGGTAAACAGgtaattcttatggcactatgttgactaaatatgcttccatctgtatcatatggttaacaatttctacggtgtaaatcag
|||||||| || ||||| |||||||||||||||||||||||||| || |||||||| ||||| ||| | ||||| | || |||||| ||| |||| || | ||||| || | | |||| | ||||| || | ||| ||| ||||
TTGCCTCACCTAGCTACGACTTATGCTGCTGTAAATACACTTGTGACAATAGGGAGCGAAAGAGCATTGTCATCAATCAATAGgtaaatctcatggt----tgct--ctaaaacaagatctacaagagtcattttgttaattatgtttaccttgtgggtcag
















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|29674660|gb|CB670935.1|CB670935
EST:     AATACACTTGTAACTATAGGGAGTGAAAGGGCACTATCATCGGTAAACAG                         GGACAACCTGTACAAGTTCATGCTTCGGATGAAAGATACATCGGGAGCTTT
genomic: AATACACTTGTAACTATAGGGAGTGAAAGGGCACTATCATCGGTAAACAGgtaattctta ... tgtaaatcagGGACAACCTGTACAAGTTCATGCTTCGGATGAAAGATACATCGGGAGCTTT
EST: gi|218480035|gb|FG968183.1|FG968183
EST:     AATACACTTGTAACTATAGGGAGTGAAAGGGCACTATCATCGGTAAACAG                         GGACAACCTGTACAAGTTCATGCTTCGGATGAAAGATACATCGGGAGCTTT
genomic: AATACACTTGTAACTATAGGGAGTGAAAGGGCACTATCATCGGTAAACAGgtaattctta ... tgtaaatcagGGACAACCTGTACAAGTTCATGCTTCGGATGAAAGATACATCGGGAGCTTT
EST: gi|29674619|gb|CB670894.1|CB670894
EST:     AATACACTTGTAACTATAGGGAGTGAAAGGGCACTATCATCGGTAAACAG                         GGACAACCTGTACAAGTTCATGCTTCGGATGAAAGATACATCGGGAGCTTT
genomic: AATACACTTGTAACTATAGGGAGTGAAAGGGCACTATCATCGGTAAACAGgtaattctta ... tgtaaatcagGGACAACCTGTACAAGTTCATGCTTCGGATGAAAGATACATCGGGAGCTTT
EST: gi|29673186|gb|CB669461.1|CB669461
EST:     AATACACTTGTAACTATAGGGAGTGAAAGGGCACTATCATCGGTAAACAG                         GGACAACCTGTACAAGTTCATGCTTCGGATGAAAGATACATCGGGAGCTTT
genomic: AATACACTTGTAACTATAGGGAGTGAAAGGGCACTATCATCGGTAAACAGgtaattctta ... tgtaaatcagGGACAACCTGTACAAGTTCATGCTTCGGATGAAAGATACATCGGGAGCTTT