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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCTCAAGTCCAGAAGGTTGCTGGAAGATATGTCTTCACGGGGTGTAAAGTATGTAGATTGCTACGGGGTTGACAATGCACTGgtgaggacattaacttccccataggataatccatataaccttctgcgttttctcctcattcgcttatcaatattatgtatgcag

Basic information

species Oryza sativa
transcript LOC_Os04g52370.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g52370.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G044629_T03 (Zea mays), 5'ss of exon 8
CCCTCAAGTCCAGAAGGTTGCTGGAAGATATGTCTTCACGGGGTGTAAAGTATGTAGATTGCTACGGGGTTGACAATGCACTGgtgaggacattaacttccccataggataatccatataaccttctgcgttttctcctcattcgcttatcaatattatgtatgcag----
| || |||||||  | |||| ||||||||||| |  | |||||||| || || |||||||||||||| |||||||| || ||||||||  |||  | ||    | |        | | | |    |     ||  |  |  ||  |||| || |   |||  ||       
CACTGAAGTCCAAGAAGTTGATGGAAGATATGGCCGCGCGGGGTGTGAAATACGTAGATTGCTACGGAGTTGACAACGCGCTGgtgagagcatgcattttgagacaaatcctcgcgttttattcccctttcttcttttttttttacttaccagtgccatgcgtgtctacag
















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|396941374|gb|HO188583.1|HO188583
EST:     CTTCACGGGGTGTAAAGTATGTAGATTGCTACGGGGTTGACAATGCACTG                         GTCCGCGTTGCTGATCCGACGTTCCTAGGTTACTTCATAGACAAAGCTGTA
genomic: CTTCACGGGGTGTAAAGTATGTAGATTGCTACGGGGTTGACAATGCACTGgtgaggacat ... atgtatgcagGTCCGCGTTGCTGATCCGACGTTCCTAGGTTACTTCATAGACAAAGCTGTA
EST: gi|428647|gb|D24799.1|D24799
EST:     CTTCACGGGGTGTAAAGTATGTAGATTGCTACGGGGTTGACAATGCACTG                         GTCCGCGTTGCTGATCCGACGTTCCTAGGTTACTTCATAGACAAAGCTGTA
genomic: CTTCACGGGGTGTAAAGTATGTAGATTGCTACGGGGTTGACAATGCACTGgtgaggacat ... atgtatgcagGTCCGCGTTGCTGATCCGACGTTCCTAGGTTACTTCATAGACAAAGCTGTA