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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattccaccgactgcacaactaccataatgaacctattgctggtaataaaatgattcatgaagttgtatcgagcagGACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCATTCCAGTTGCTGCACCTCCAAAGCAACATTCCAGCAATTTACCACCTTC

Basic information

species Oryza sativa
transcript LOC_Os01g51290.1
intron # 5
splice site 3'
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|86876092|gb|CI325591.1|CI325591
EST:     AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAG                         GACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
genomic: AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAGgtattccacc ... tatcgagcagGACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
EST: gi|86487913|gb|CI130546.1|CI130546
EST:     AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAG                         GACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
genomic: AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAGgtattccacc ... tatcgagcagGACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
EST: gi|89169847|gb|CI110206.1|CI110206
EST:     AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAG                         GACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
genomic: AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAGgtattccacc ... tatcgagcagGACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
EST: gi|396941635|gb|HO188292.1|HO188292
EST:     AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAG                         GACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
genomic: AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAGgtattccacc ... tatcgagcagGACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
EST: gi|58667219|gb|CK055905.1|CK055905
EST:     AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAG                         GACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
genomic: AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAGgtattccacc ... tatcgagcagGACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
EST: gi|27545896|gb|CA764208.2|CA764208
EST:     GAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAG                         GACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
genomic: GAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAGgtattccacc ... tatcgagcagGACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
EST: gi|87009778|gb|CI310881.1|CI310881
EST:     AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAG                         GACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
genomic: AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAGgtattccacc ... tatcgagcagGACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
EST: gi|94362946|gb|CI053107.1|CI053107
EST:     AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAG                         GACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
genomic: AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAGgtattccacc ... tatcgagcagGACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
EST: gi|88961131|gb|CI096534.1|CI096534
EST:     AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAG                         GACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
genomic: AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAGgtattccacc ... tatcgagcagGACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
EST: gi|86423364|gb|CI060937.1|CI060937
EST:     AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAG                         GACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA
genomic: AAAGGGAAGGCATCACCATTCTTTGCCTGTAAATAATACCCGTGTAAAAGgtattccacc ... tatcgagcagGACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accataatgaacctattgctggtaataaaatgattcatgaagttgtatcgagcagGACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCATTCCAGTTGCTGCACCTCCAAAGCAACATTCCAGCAATTTACCACCTTC
                      taataaaatgattcat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattccaccgactgcacaactaccataatgaacctattgctggtaataaaatgattcatgaagttgtatcgagcagGACCTGCCTATTCTCCTTCAAATTCTCCCAGTATCCATAGAAAACATGGCATTCCAGTTGCTGCACCTCCAAAGCAACATTCCAGCAATTTACCACCTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA