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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAACTTCCTATTTTGATTGATGCCGAACGGAAGAGGGATGGATTGGACGAGCTTCTCAATTTCGCATCTTATGTTGTATGCTCTGCAAAATTTCCTCAGgtaactaattctattgcataagggtttaaccattaagccctgtctgtattcagcaagaaaagttcgctttaatgtgcattatttttctcctgaaaagtta...

Basic information

species Oryza sativa
transcript LOC_Os08g45180.1
intron # 6
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|29672289|gb|CB668564.1|CB668564
EST:     AGCTTCTCAATTTCGCATCTTATGTTGTATGCTCTGCAAAATTTCCTCAG                         GCTTGGACAGGAGCCTCATCAACACCGGTTGCTTTGGTGTCCATGCTTTTA
genomic: AGCTTCTCAATTTCGCATCTTATGTTGTATGCTCTGCAAAATTTCCTCAGgtaactaatt ... aataatgcagGCTTGGACAGGAGCCTCATCAACACCGGTTGCTTTGGTGTCCATGCTTTTA
EST: gi|163927398|gb|EG710682.1|EG710682
EST:     ATCTTCTCAATTTCGCATCTTATGTTGTATGCTCTGCAAAATTTCCTCAG                         GCTTGGACAGGAGCCTCATCAACACCGGTTGCTTTGGTGTCCATGCTTTTA
genomic: AGCTTCTCAATTTCGCATCTTATGTTGTATGCTCTGCAAAATTTCCTCAGgtaactaatt ... aataatgcagGCTTGGACAGGAGCCTCATCAACACCGGTTGCTTTGGTGTCCATGCTTTTA
EST: gi|29672290|gb|CB668565.1|CB668565
EST:     AGCTTCTCAATTTCGCATCTTATGTTGTATGCTCTGCAAAATTTCCTCAG                         GCTTGGACAGGAGCCTCATCAACACCGGTTGCTTTGGTGTCCATGCTTTTA
genomic: AGCTTCTCAATTTCGCATCTTATGTTGTATGCTCTGCAAAATTTCCTCAGgtaactaatt ... aataatgcagGCTTGGACAGGAGCCTCATCAACACCGGTTGCTTTGGTGTCCATGCTTTTA
EST: gi|29656464|gb|CB652739.1|CB652739
EST:     AGCTTCTCAATTTCGCATCTTATGTTGTATGCTCTGCAAAATTTCCTCAG                         GCTTGGACAGGAGCCTCATCAACACCGGTTGCTTTGGTGTCCATGCTTTTA
genomic: AGCTTCTCAATTTCGCATCTTATGTTGTATGCTCTGCAAAATTTCCTCAGgtaactaatt ... aataatgcagGCTTGGACAGGAGCCTCATCAACACCGGTTGCTTTGGTGTCCATGCTTTTA
EST: gi|29664341|gb|CB660616.1|CB660616
EST:     AGCTTCTCAATTTCGCATCTTATGTTGTATGCTCTGCAAAATTTCCTCAG                         GCTTGGACAGGAGCCTCATCAACACCGGTTGCTTTGGTGTCCATGCTTTTA
genomic: AGCTTCTCAATTTCGCATCTTATGTTGTATGCTCTGCAAAATTTCCTCAGgtaactaatt ... aataatgcagGCTTGGACAGGAGCCTCATCAACACCGGTTGCTTTGGTGTCCATGCTTTTA

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: 58 (upstream exon), 73 (downstream exon)
Score: 18

AAAACTTCCTATTTTGATTGATGCCGAACGGAAGAGGGATGGATTGGACGAGCTTCTCAATTTCGCATCTTATGTTGTATGCTCTGCAAAATTTCCTCAGgtaactaatt ... aataatgcagGCTTGGACAGGAGCCTCATCAACACCGGTTGCTTTGGTGTCCATGCTTTTAAGATTGCCTAATATCAAGTTTATTATTGTAACCCTTGGAGAAAAGGGAT




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