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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTGCAACCGAGTTTGCTATATCACTTGTCCAGACATTGATTACCCAAGAATCTATTAGCATCGCAGAGGTTTATAATGTTGTTGATGCCTTATCAAAAgtaagacattttttttgcagatgttttattctagtgtcttatgaccttttatttggcttacacatatgctattttgcag

Basic information

species Oryza sativa
transcript LOC_Os10g40780.3
intron # 36
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|58666011|gb|CK054697.1|CK054697
EST:     AATCTATTAGCATCGCAGAGGTTTATAATGTTGTTGATGCCTTATCAAAA                         CTTGCAATCAGGCCCAGTTCTCCTGAATCGCTGCAGCAGTTGATTGAAATC
genomic: AATCTATTAGCATCGCAGAGGTTTATAATGTTGTTGATGCCTTATCAAAAgtaagacatt ... tattttgcagCTTGCAATCAGGCCCAGTTCTCCTGAATCGCTGCAGCAGTTGATTGAAATC
EST: gi|29615806|gb|CB620818.1|CB620818
EST:     AATCTATTAGCATCGCAGAGGTTTATAATGTTGTTGATGCCTTATCAAAA                         CTTGCAATCAGGCCCAGTTCTCCTGAATCGCTGCAGCAGTTGATTGAAATC
genomic: AATCTATTAGCATCGCAGAGGTTTATAATGTTGTTGATGCCTTATCAAAAgtaagacatt ... tattttgcagCTTGCAATCAGGCCCAGTTCTCCTGAATCGCTGCAGCAGTTGATTGAAATC
EST: gi|29629737|gb|CB634746.1|CB634746
EST:     AATCTATTAGCATCGCAGAGGTTTATAATGTTGTTGATGCCTTATCAAAA                         CTTGCAATCAGGCCCAGTTCTCCTGAATCGCTGCAGCAGTTGATTGAAATC
genomic: AATCTATTAGCATCGCAGAGGTTTATAATGTTGTTGATGCCTTATCAAAAgtaagacatt ... tattttgcagCTTGCAATCAGGCCCAGTTCTCCTGAATCGCTGCAGCAGTTGATTGAAATC
EST: gi|58604721|gb|CK015249.1|CK015249
EST:     AATCTATTAGCATCGCAGAGGTTTATAATGTTGTTGATGCCTTATCAAAG                         CTTGCAATCAGGCCCAGTTCTCCTGAATCGCTGCAGCAGTTGATTGAAATC
genomic: AATCTATTAGCATCGCAGAGGTTTATAATGTTGTTGATGCCTTATCAAAAgtaagacatt ... tattttgcagCTTGCAATCAGGCCCAGTTCTCCTGAATCGCTGCAGCAGTTGATTGAAATC
EST: gi|58672055|gb|CK060741.1|CK060741
EST:     AATCTATTAGCATCGCAGAGGTTTATAATGTTGTTGATGCCTTATCAAAA                         CTTGCAATCAGGCCCAGTTCTCCTGAATCGCTGCAGCAGTTGATTGAAATC
genomic: AATCTATTAGCATCGCAGAGGTTTATAATGTTGTTGATGCCTTATCAAAAgtaagacatt ... tattttgcagCTTGCAATCAGGCCCAGTTCTCCTGAATCGCTGCAGCAGTTGATTGAAATC

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: 70 (upstream exon), 66 (downstream exon)
Score: 30

GGCTGCAACCGAGTTTGCTATATCACTTGTCCAGACATTGATTACCCAAGAATCTATTAGCATCGCAGAGGTTTATAATGTTGTTGATGCCTTATCAAAAgtaagacatt ... tattttgcagCTTGCAATCAGGCCCAGTTCTCCTGAATCGCTGCAGCAGTTGATTGAAATCGCTAGAAGTTTTGCTTCCGTGAAGGATGAAAATATTAGACAGTCAAGGG




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