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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACCTGCAGGACCCGCGTGTGCTGTCCGTCGCCCCTTCCCTCATACGCGCCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAGgtatgctcccgcgcctacctcgtgcgagaacacggggggaatctctcctcgctgactcttgtctactggataagcgcgcag

Basic information

species Oryza sativa
transcript LOC_Os04g48820.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g48820.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G114131_T02 (Zea mays), 5'ss of exon 1
CCACCTGCAGGACCCGCGTGTGCTGTCCGTCGCCCCTTCCCTCATACGCGCCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAGgtatgctcccg----cgcctacctcgt---------------gcgagaacacggggggaatctctcctcgctgactcttgtct-actggataag---cgcgcag
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CCACCTGCAAGACCCCCGCATCGCGGCCGTCGCCCCTGCCCTTATACGAGCCGCCGGCGCATCCGGCGTCGCACGCTTCGCTGTCAACGGCACCTCCGAGgtgcgccctccgctccatctacctcatcccagctccagggtcacgggcgtacatggtacatagctcgtcgctgactcttcccttaatcgacacgacacgtgcag
















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|33795919|gb|CF323827.1|CF323827
EST:     GCGCGCTTCGCCGTCAACGGCACTTCCGAG                         AAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
genomic: GCGCGCTTCGCCGTCAACGGCACTTCCGAGgtatgctccc ... aagcgcgcagAAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
EST: gi|218500580|gb|FG960548.1|FG960548
EST:     CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAG                         AAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
genomic: CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAGgtatgctccc ... aagcgcgcagAAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
EST: gi|33794900|gb|CF323330.1|CF323330
EST:     GCGCGCTTCGCCGTCAACGGCACTTCCGAG                         AAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
genomic: GCGCGCTTCGCCGTCAACGGCACTTCCGAGgtatgctccc ... aagcgcgcagAAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
EST: gi|58689823|gb|CK078510.1|CK078510
EST:     CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAG                         AAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
genomic: CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAGgtatgctccc ... aagcgcgcagAAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
EST: gi|87023935|gb|CI288288.1|CI288288
EST:     CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCAAG                         AAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
genomic: CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAGgtatgctccc ... aagcgcgcagAAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
EST: gi|66921923|gb|CX108771.1|CX108771
EST:     CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAG                         AAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
genomic: CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAGgtatgctccc ... aagcgcgcagAAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
EST: gi|88737232|gb|CI760740.1|CI760740
EST:     CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCNACGGCACTTCCGAG                         AAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
genomic: CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAGgtatgctccc ... aagcgcgcagAAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
EST: gi|86829874|gb|CI288559.1|CI288559
EST:     CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAG                         AAAGACTGGCACCTGGTGAAGCAG
genomic: CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAGgtatgctccc ... aagcgcgcagAAAGACTGGCACCTGGTGAAGCAG
EST: gi|88413444|gb|CI581459.1|CI581459
EST:     CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAG                         AAAGACTGGCAACTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
genomic: CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAGgtatgctccc ... aagcgcgcagAAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
EST: gi|58690259|gb|CK078946.1|CK078946
EST:     CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAG                         AAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC
genomic: CCGCCACCGCCGCCGGCGTCGCGCGCTTCGCCGTCAACGGCACTTCCGAGgtatgctccc ... aagcgcgcagAAAGACTGGCACCTGGTGAAGCAGATGGCCGAGGAGTACCCGTCCGTCGTC