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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcggacaccacccttcgacatatatttttactgcagttgtgcattttagttgcagctttagtgaacagttctaaaatcatcagctggatgttgattcttgttttggaacttctttagGAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAACAACGAAGATACGAAAGCTTTTGCTCCTAAACAGGCGAGTTTCTGCGTAC

Basic information

species Oryza sativa
transcript LOC_Os03g22870.2
intron # 6
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|88557780|gb|CI488214.1|CI488214
EST:     ACACATTTATCAGAAATCCTAATGATCGAG                         GAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
genomic: ACACATTTATCAGAAATCCTAATGATCGAGgtacgcggac ... acttctttagGAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
EST: gi|88553657|gb|CI483785.1|CI483785
EST:     CACCCTTTGACACATTTATCAGAAATCCTAATGATCGAG                         GAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
genomic: CACCCTTTGACACATTTATCAGAAATCCTAATGATCGAGgtacgcggac ... acttctttagGAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
EST: gi|88540184|gb|CI470210.1|CI470210
EST:     AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAG                         GAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
genomic: AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAGgtacgcggac ... acttctttagGAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
EST: gi|88530866|gb|CI459292.1|CI459292
EST:     AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAG                         GAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
genomic: AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAGgtacgcggac ... acttctttagGAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
EST: gi|88249568|gb|CI249417.1|CI249417
EST:     AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAG                         GAGCTGGACCTGGAAACTCTTTGTAGATTAT-TGGACTTGAAATTAGCAAC
genomic: AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAGgtacgcggac ... acttctttagGAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
EST: gi|88532887|gb|CI461334.1|CI461334
EST:     AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAG                         GAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
genomic: AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAGgtacgcggac ... acttctttagGAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
EST: gi|88225145|gb|CI225061.1|CI225061
EST:     AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAG                         GAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
genomic: AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAGgtacgcggac ... acttctttagGAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
EST: gi|88550116|gb|CI480064.1|CI480064
EST:     CTTCNACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAG                         GAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
genomic: CTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAGgtacgcggac ... acttctttagGAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
EST: gi|86497041|gb|CI139674.1|CI139674
EST:     AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAG                         GAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
genomic: AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAGgtacgcggac ... acttctttagGAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
EST: gi|88964282|gb|CI045475.1|CI045475
EST:     AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAG                         GAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC
genomic: AACTTCAACACCACCCTTTGACACATTTATCAGAAATCCTAATGATCGAGgtacgcggac ... acttctttagGAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaacagttctaaaatcatcagctggatgttgattcttgttttggaacttctttagGAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAACAACGAAGATACGAAAGCTTTTGCTCCTAAACAGGCGAGTTTCTGCGTAC
                                              cttcttt  CT-rich tract
      ttctaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgcggacaccacccttcgacatatatttttactgcagttgtgcattttagttgcagctttagtgaacagttctaaaatcatcagctggatgttgattcttgttttggaacttctttagGAGCTGGACCTGGAAACTCTTTGTAGATTATGTGGACTTGAAATTAGCAACAACGAAGATACGAAAGCTTTTGCTCCTAAACAGGCGAGTTTCTGCGTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA