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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTGCTTTTAACAGCACTATACTTTGGGATCCTCAGAGATGGAACAGCCCCACTTTAGAGTCTATTATAGTCCATTCAGGTGGCAGAGGTGGCTTGCAGgtgagtttttttagtatttatgtgttcaagcagttgaaaatacgttttcaataagctgtggagcttctgttgtctgatataaactgaaaccgacttccta...

Basic information

species Oryza sativa
transcript LOC_Os01g48440.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g48440.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G037469_T01 (Zea mays), 5'ss of exon 3
ATTTGCTTTTAACAGCACTATACTTTGGGATCCTCAGAGATGGAACAGCCCCACTTTAGAGTCTATTATAGTCCATTCAGGTGGCAGAGGTGGCTTGCAGgtgagtttttttagtatt-tatgtgttcaagcagttgaaaatacgttttcaataagctgtggagcttctgttgtctgatataaactgaaacc-gacttccta----
 |||||||||||||||||||||||||||||||| ||||| |||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||| ||| ||||||  | | | | |||||||       ||| ||       || |||  |   |   | |||| ||  |||      |||    |  ||||||    
TTTTGCTTTTAACAGCACTATACTTTGGGATCCCCAGAGGTGGAACAGCCCCACTTTAGAGTCTATTATACTCCATTCAGGTGGCAGAGGTGGCTTGCAGgttagtatttttatcactatttttgttcaaaaga---aaagtagaaaacaaagaaggcg---attatatgttttcacataggtgtggaactttggtttcctaatag
















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|87018815|gb|CI256700.1|CI256700
EST:     CCACTTTAGAGTCTATTATAGTCCATTCAGGTGGCAGAGGTGGCTTGCAG                         GAGTCAAGATTTATCGAGAAGCTTGTTGAGGACGAGAGTCAAATGGAAGGC
genomic: CCACTTTAGAGTCTATTATAGTCCATTCAGGTGGCAGAGGTGGCTTGCAGgtgagttttt ... ggtattacagGAGTCAAGATTTATCGAGAAGCTTGTTGAGGACGAGAGTCAAATGGAAGGC
EST: gi|88271487|gb|CI387540.1|CI387540
EST:     CACTTTAGAGTCTATTATAGTCCATTCA-GTGGCAGAGGTGGGCTTGCAG                         GAGTCAAGATTTATCGAGAAGCTTGTTGAGCACGAGAGTCAAATGGAAGG
genomic: CACTTTAGAGTCTATTATAGTCCATTCAGGTGGCAGAGGT-GGCTTGCAGgtgagttttt ... ggtattacagGAGTCAAGATTTATCGAGAAGCTTGTTGAGGACGAGAGTCAAATGGAAGG
EST: gi|88228916|gb|CI226767.1|CI226767
EST:     CCACTTTAGAGTCTATTATAGTCCATTCAGGTGGCAGAGGTGGCTTGCAG                         GAGTCAAGATTTATCGAGAAGCTTGTTGAGGACGAGAGTCAAATGGAAGGC
genomic: CCACTTTAGAGTCTATTATAGTCCATTCAGGTGGCAGAGGTGGCTTGCAGgtgagttttt ... ggtattacagGAGTCAAGATTTATCGAGAAGCTTGTTGAGGACGAGAGTCAAATGGAAGGC
EST: gi|88978595|gb|CI384937.1|CI384937
EST:     CCACTTTAGAGTCTATTATAGTCCATTCAGGTGGCAGAGGTGGCTTGCAG                         GAGTCAAGATTTATCGAGAAGCTTGTTGAGGACGAGAGTCAAATGGAAGGC
genomic: CCACTTTAGAGTCTATTATAGTCCATTCAGGTGGCAGAGGTGGCTTGCAGgtgagttttt ... ggtattacagGAGTCAAGATTTATCGAGAAGCTTGTTGAGGACGAGAGTCAAATGGAAGGC