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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAATTTAGTGATGTATGTTAAATCACCAGAAACTGTGGAGTTGACAGTTTCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACCgttagtgccttttctctcaatactgggacaggagaacaaggatgtttgcccattcccattagttttgaaaggattatattgttgcag

Basic information

species Oryza sativa
transcript LOC_Os11g03730.2
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|29672785|gb|CB669060.1|CB669060
EST:     TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACC                         GGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
genomic: TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACCgttagtgcct ... attgttgcagGGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
EST: gi|29644765|gb|CB649772.1|CB649772
EST:     TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACC                         GGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
genomic: TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACCgttagtgcct ... attgttgcagGGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
EST: gi|29646541|gb|CB651548.1|CB651548
EST:     TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACC                         GGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
genomic: TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACCgttagtgcct ... attgttgcagGGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
EST: gi|29632787|gb|CB637796.1|CB637796
EST:     CCTTAACAAGTTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACC                         GGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAACTTGGTTGCTCA
genomic: CCTTAACAAG-TTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACCgttagtgcct ... attgttgcagGGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
EST: gi|29673416|gb|CB669691.1|CB669691
EST:     TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACC                         GGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
genomic: TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACCgttagtgcct ... attgttgcagGGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
EST: gi|29638131|gb|CB643140.1|CB643140
EST:     TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACC                         GGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
genomic: TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACCgttagtgcct ... attgttgcagGGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
EST: gi|29680212|gb|CB676487.1|CB676487
EST:     TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACC                         GGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
genomic: TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACCgttagtgcct ... attgttgcagGGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
EST: gi|29674874|gb|CB671149.1|CB671149
EST:     TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACC                         GGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA
genomic: TCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACCgttagtgcct ... attgttgcagGGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCA

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: 74 (upstream exon), 66 (downstream exon)
Score: 21

ACAATTTAGTGATGTATGTTAAATCACCAGAAACTGTGGAGTTGACAGTTTCCTTAACAAGTTCTGATGGGTCGCAAAATTTGGCTTCAACTACCATACCgttagtgcct ... attgttgcagGGTTTCTGGTGCATCGAATTGGACAAAACTGGAGCAGAAGTTGGTTGCTCAAGGAACAAATAGAACCTCAAGGCTTCAAATAACAACTAACAAGAAGGGA




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