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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGCGTATTTTCCCAGCATTGCGAGTGACTCTGAGTCTGAGGGAGTCAGATCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGGgtatgccttgttccttctcccatatattttgttcgtcttgttgttgcttaggaacagaagagcatcaccctagcatgcgtttttgtattacagaccccaa...

Basic information

species Oryza sativa
transcript LOC_Os06g51400.1
intron # 5
splice site 5'
intron type U2

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|5667341|gb|AU077583.1|AU077583
EST:     TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGG                         GTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
genomic: TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGGgtatgccttg ... ataattgcagGTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
EST: gi|29614571|gb|CB619584.1|CB619584
EST:     TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGG                         GTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
genomic: TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGGgtatgccttg ... ataattgcagGTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
EST: gi|88438394|gb|CI541138.1|CI541138
EST:     TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGG                         GTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
genomic: TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGGgtatgccttg ... ataattgcagGTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
EST: gi|88838234|gb|CI373594.1|CI373594
EST:     TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGG                         GTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
genomic: TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGGgtatgccttg ... ataattgcagGTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
EST: gi|88850872|gb|CI096262.1|CI096262
EST:     TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGG                         GTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
genomic: TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGGgtatgccttg ... ataattgcagGTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
EST: gi|86433592|gb|CI093935.1|CI093935
EST:     TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGG                         GTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
genomic: TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGGgtatgccttg ... ataattgcagGTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
EST: gi|89193681|gb|CI116314.1|CI116314
EST:     TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGG                         GTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
genomic: TCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGGgtatgccttg ... ataattgcagGTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA
EST: gi|11564714|gb|AU165350.1|AU165350
EST:     CCAATGGAAAAAGGAAGCAGACGCAGGCTGG                         GTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATN
genomic: CCAATGGAAAAAGGAAGCAGACGCAGGCTGGgtatgccttg ... ataattgcagGTGGCTCAGCGAGGAAGGTAGAAAGAAAAGAACACCGGCGAGTCAAAGATA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGCGTATTTTCCCAGCATTGCGAGTGACTCTGAGTCTGAGGGAGTCAGATCCAAGACGCCAATGGGTGCCAATGGAAAAAGGAAGCAGACGCAGGCTGGgtatgccttgttccttctcccatatattttgttcgtcttgttgttgcttaggaacagaagagcatcaccctagcatgcgtttttgtattacagaccccaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA