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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaccaaaaccaaacccatccattcccaaattccccagcagtaagaacgcgagatgcccactggtgcggatgctgatgcgcgcgcgcgtgcagGCGCTGGACCGGGTGGTGGCGGAGGCGTCGGAGCACGGCGTGCGGCTGATCCTGAGCCTGGCGAACAACCTGGACGCGTACGGCGGGAAGCGGCAGTACG

Basic information

species Oryza sativa
transcript LOC_Os01g54300.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g54300.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G140201_T01 (Zea mays), 3'ss of exon 1
gtaaccaaaaccaaacccatccattcccaaattccccagcagtaagaacgcgagatgcccactggtgcgga-tgct-gatgcgcgcgcgcgtg-cagGCGCTGGACCGGGTGGTGGCGGAGGCGTCGGAGCACGGCGTGCGGCTGATCCTGAGCCTGGCGAACAACCTGGACGCGTACGGCGGGAAGCGGCAGTACG
||||  ||||  |||||   ||      || ||   |  |   ||   ||||   |      ||||||  | ||||  |     | | ||| | |||||||||||||||||||| | ||||||   |  |||||| ||||||||||||||||||||||||||||||||||| |||||||| || |||  ||||||||
gtaaaaaaaaggaaacc-gccccccgttaattttagc--cgaaaatgccgcgccttctggggtggtgctaactgcttaacaatggagtgcgcgtcagGCGCTGGACCGGGTGGTCGTGGAGGCCGGGCGGCACGGGGTGCGGCTGATCCTGAGCCTGGCGAACAACCTGGAGGCGTACGGTGGCAAGACGCAGTACG
















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|58613302|gb|CK041014.1|CK041014
EST:     ACAACGCCCTCCAGCTCTCCCCCGGCCACTTCGACGAGCGCGTCTTCAAG                         GCGCTGGACCGGGTGGTGGCGGAGGCGGGGGAGCACGGCGTGCGGCTGATC
genomic: ACAACGCCCTCCAGCTCTCCCCCGGCCACTTCGACGAGCGCGTCTTCAAGgtaaccaaaa ... gcgcgtgcagGCGCTGGACCGGGTGGTGGCGGAGGCGTCGGAGCACGGCGTGCGGCTGATC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtaagaacgcgagatgcccactggtgcggatgctgatgcgcgcgcgcgtgcagGCGCTGGACCGGGTGGTGGCGGAGGCGTCGGAGCACGGCGTGCGGCTGATCCTGAGCCTGGCGAACAACCTGGACGCGTACGGCGGGAAGCGGCAGTACG
                                tgctgat  putative branch site (score: 3)