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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactcctatgcatttttatgaaccatgttgcagccattactacagtactttatataagtgaagtaaacaaatcggtgttgtgaattactagcacatacaagaaatagaaacttgtgttatgttgatttgatcataaaatggaaattcaatgttgtgcag

Basic information

species Oryza sativa
transcript LOC_Os11g04030.1
intron # 16
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|86431076|gb|CI083499.1|CI083499
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88532104|gb|CI461565.1|CI461565
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88520442|gb|CI448096.1|CI448096
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88283253|gb|CI404699.1|CI404699
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88518921|gb|CI446575.1|CI446575
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88507466|gb|CI434972.1|CI434972
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88848658|gb|CI087180.1|CI087180
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88219437|gb|CI218997.1|CI218997
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88217007|gb|CI216711.1|CI216711
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88841567|gb|CI080823.1|CI080823
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88488062|gb|CI425333.1|CI425333
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|29678071|gb|CB674346.1|CB674346
EST:     ANNNNNNNGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|86260630|gb|CI066503.1|CI066503
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88523558|gb|CI451395.1|CI451395
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|86494925|gb|CI137558.1|CI137558
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|29680055|gb|CB676330.1|CB676330
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|86870704|gb|CI323580.1|CI323580
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAAGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88531586|gb|CI458682.1|CI458682
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|89186840|gb|CI052253.1|CI052253
EST:     ATTCTCTTGGGCACCAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88253816|gb|CI352442.1|CI352442
EST:     ATTCTCTTGGGCACAAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCAC-AAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88842694|gb|CI081950.1|CI081950
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|87006928|gb|CI275236.1|CI275236
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|29644402|gb|CB649409.1|CB649409
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88484549|gb|CI421820.1|CI421820
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88414248|gb|CI533618.1|CI533618
EST:     ATTCTCTTGGG--CAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88537107|gb|CI464921.1|CI464921
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|87025643|gb|CI250137.1|CI250137
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88486927|gb|CI424198.1|CI424198
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|29679866|gb|CB676141.1|CB676141
EST:     ATTTTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88537059|gb|CI464870.1|CI464870
EST:     ATTCTCTGGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|88841121|gb|CI080575.1|CI080575
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
EST: gi|89193059|gb|CI050357.1|CI050357
EST:     ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAG                         GTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA
genomic: ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 41 (upstream exon), 67 (downstream exon)
Score: 9

ATTCTCTTGGGCACAAAAGCGACAGCATGCAGCATTTTTTCCAGgtaaatactc ... tgttgtgcagGTGATCAGATGGTGTTTCTTTTACTGAACCTGACTGAGGTCATTGGACTCATGTTGACCTTCAAACCTTTCTTGGCGGTTCCTCAACAATACAAATAGAA




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