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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGCGCCGCGGGGATCCGCCCCGTCCCGCGCATCCACCACGCCCCCGTCCTCCGCGTCGCGCAGGACGATTATTCCGCCTACGCCCTCGCCGTCATGAAGgtgcgttcccttttctcggttcggtttggttggtgggggaagggggtaattctaattctgggcttgctctgcag

Basic information

species Oryza sativa
transcript LOC_Os01g56890.3
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56890.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G127453_T02 (Zea mays), 5'ss of exon 1
CGGCGCCGCGGGGATCCGCCCCGTCCCGCGCATCCACCACGCCCCCGTCCTCCGCGT---CGCGCAGGACGATTATTCCGCCTACGCCCTCGCCGTCATGAAGgtgcgttc----ccttttctcggttcggtttggttggtg--ggggaaggggg-taattctaattctgggct---tgctctgcag
 || || |  |||||||| ||||||||||||||| |||||||| |||||||||||||   | ||||||| || |   ||||||||||||||||| |||||||||| ||| |    |  |  | | | | | || || | |||  || || |  || |||||||     | || |   ||||| ||||
-GGGGCAG--GGGATCCGACCCGTCCCGCGCATCAACCACGCCTCCGTCCTCCGCGTTTCCACGCAGGAAGACTCCGCCGCCTACGCCCTCGCCATCATGAAGgtacgtacgcacctgtcccccagcttgattggggttgtgttggtgaggaaggctaattctggaggttggttggttgctccgcag

upper sequence: LOC_Os01g56890.3 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G132978_T01 (Zea mays), 5'ss of exon 1
CGGCGCCGCGGGGATCCGCCCCGTCCCGCGCATCCACCACGCCCCCGTCCTCCGCGTCGC---GCAGGACGATTATTCCGCCTACGCCCTCGCCGTCATGAAGgtgcgttc---ccttttctcggttcggtttggttg--gtgggggaagggggtaattctaattctgg---------gcttgctctgcag
 || || |  |||||||| |||||||||||||||||||| |||||||||||| |||| ||   |||||| || ||  ||||||||||||||| | |||||||||| ||      ||  | |||    | | ||| |||  || |||   | ||| ||  ||||||||||         | |||||| ||||
-GGGGCAG--GGGATCCGACCCGTCCCGCGCATCCACCATGCCCCCGTCCTCAGCGTTGCTACGCAGGAAGACTACGCCGCCTACGCCCTCGACATCATGAAGgtacgcatacacccctcctcccccctgcttgattgaggttgggttggtggggaaggctaattctggaggttggttggttgctccgcag
















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|88827005|gb|CI777570.1|CI777570
EST:     TCCGCGTCGCGCAGGACGATTATTCCGCCTACGCCCTCGCCGTCATGAAG                         CATCCGGATCCGATAGGGG
genomic: TCCGCGTCGCGCAGGACGATTATTCCGCCTACGCCCTCGCCGTCATGAAGgtgcgttccc ... tgctctgcagCATCCGGATCCGATAGGGG
EST: gi|33797362|gb|CF324543.1|CF324543
EST:     GCCGTCATGAAG                         CATCCGGATCCGATAGGGGAGGGGTTGGCCATGGAGGCTATGGTGGAGGCG
genomic: GCCGTCATGAAGgtgcgttccc ... tgctctgcagCATCCGGATCCGATAGGGGAGGGGTTGGCCATGGAGGCTATGGTGGAGGCG