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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcgccgcccaccgacacacacaatgttcgaattgattccatagattctgacggcgacgcgcgtacgtgcagCTCGGCGGGCCAAGCTGGGCGGTGCCGCTGGGGCGGCGGGACTCGACGACGGCGAGCCTCAGCGCGGCGAACAGCGACCTGCCGGCGCCGTCGAGCGACC

Basic information

species Oryza sativa
transcript LOC_Os02g14430.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g14430.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G117706_T01 (Zea mays), 3'ss of exon 2
----gtacgcgccgcccaccgacacacacaatgttcgaattgattccatagattctgacggc------gacgcgcgta--cgtgcagCTCGGCGGGCCAAGCTGGGCGGTGCCGCTGGGGCGGCGGGACTCGACGACGGCGAGCCTCAGCGCGGCGAACAGCGACCTGCCGGCGCCGTCGAGCGACC
    ||||   |    |      ||  |  ||    |||  || |||||   | || || ||      ||  ||| |   ||  |||||||| || ||||||||||||||||||||||| ||||| |||||||| |||||||||||   |  ||| ||||||||||||||| |||||     || ||
gtaagtacatacgttacgtacgtacgta-gatagatgaaccgactccatcactacttactgctgctccgatccgcatcatcggtcagCTCGGAGGACCAAGCTGGGCGGTGCCGCTGGGCCGGCGCGACTCGACCACGGCGAGCCTGGCCCTGGCCAACAGCGACCTGCCGTCGCCGGTCTCCGGCC
















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|29643794|gb|CB648801.1|CB648801
EST:     TCTCCTGCGCCGACATCGTCGCCCTCGCCGCCCGCGACAGCACCGCCCTG                         CTCGGCGGGCCAAGCTGGGCGGTGCCGCTGGGGCGGCGGGACTCGACGACG
genomic: TCTCCTGCGCCGACATCGTCGCCCTCGCCGCCCGCGACAGCACCGCCCTGgtacgcgccg ... gtacgtgcagCTCGGCGGGCCAAGCTGGGCGGTGCCGCTGGGGCGGCGGGACTCGACGACG
EST: gi|29643482|gb|CB648489.1|CB648489
EST:     TCTCCTGCGCCGACATCGTCGCCCTCGCCGCCCGCGACAGCACCGCCCTG                         CTCGGCGGGCCAAGCTGGGCGGTGCCGCTGGGGCGGCGGGACTCGACGACG
genomic: TCTCCTGCGCCGACATCGTCGCCCTCGCCGCCCGCGACAGCACCGCCCTGgtacgcgccg ... gtacgtgcagCTCGGCGGGCCAAGCTGGGCGGTGCCGCTGGGGCGGCGGGACTCGACGACG
EST: gi|29669791|gb|CB666066.1|CB666066
EST:     TCTCCTGCGCCGACATCGTCGCCCTCGCCGCCCGCGACAGCACCGCCCTG                         CTCGGCGGGCCAAGCTGGGCGGTGCCGCTGGGGCGGCGGGACTCGACGACG
genomic: TCTCCTGCGCCGACATCGTCGCCCTCGCCGCCCGCGACAGCACCGCCCTGgtacgcgccg ... gtacgtgcagCTCGGCGGGCCAAGCTGGGCGGTGCCGCTGGGGCGGCGGGACTCGACGACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacacaatgttcgaattgattccatagattctgacggcgacgcgcgtacgtgcagCTCGGCGGGCCAAGCTGGGCGGTGCCGCTGGGGCGGCGGGACTCGACGACGGCGAGCCTCAGCGCGGCGAACAGCGACCTGCCGGCGCCGTCGAGCGACC
                            ttctgac  putative branch site (score: 2)
             aattgatt  TA-rich tract