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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACCATCTTGTGTTAATCCTGAAGCTATTGCACCTCCGTGCTAATCTCCTGCATTTCAGCGCTTATGTATTGAGACAGTGCCTTAATTCTCAACTCTTGgtgagtgtacactgtggtaagcttttcatccaatgataacctgttccccgttagaaaactgtattctatactggtcattgttctctttaatgtcctttctctgtattagtacctggttcaggggagaatattattaattttgctaactttatttgccag

Basic information

species Oryza sativa
transcript LOC_Os01g61320.1
intron # 4
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|88478049|gb|CI415320.1|CI415320
EST:     CAGTGCCTTAATTCTCAACTCTTG                         GAAAATAGTCTAAATAGACCAGTGTGGTTATGATGCTTGTATCTGTAATAA
genomic: CAGTGCCTTAATTCTCAACTCTTGgtgagtgtac ... tatttgccagGAAAATAGTCTAAATAGACCAGTGTGGTTATGATGCTTGTATCTGTAATAA
EST: gi|88226856|gb|CI224841.1|CI224841
EST:     TGCATTTCAGCGCTTATGTATTGAGACAGTGCCTTAATTCTCAACTCTTG                         GAAAATAGTCTAAATAGACCAGTGTGGTTATGATGCTTGTATCTGTAATAA
genomic: TGCATTTCAGCGCTTATGTATTGAGACAGTGCCTTAATTCTCAACTCTTGgtgagtgtac ... tatttgccagGAAAATAGTCTAAATAGACCAGTGTGGTTATGATGCTTGTATCTGTAATAA
EST: gi|88848205|gb|CI086727.1|CI086727
EST:     TGCATTTCAGCGCTTATGTATTGAGACAGTGCCTTAATTCTCAACTCTTG                         GAAAATAGTCTAAATAGACCAGTGTGGTTATGATGCTTGTATCTGTAATAA
genomic: TGCATTTCAGCGCTTATGTATTGAGACAGTGCCTTAATTCTCAACTCTTGgtgagtgtac ... tatttgccagGAAAATAGTCTAAATAGACCAGTGTGGTTATGATGCTTGTATCTGTAATAA
EST: gi|86522908|gb|CI163114.1|CI163114
EST:     TGCATTTCAGCGCTTATGTATTGAGACAGTGCCTTAATTCTCAACTCTTG                         GAAAATAGTCTAAATAGACCAGTGTGGTTATGATGCTTGTATCTGTAATAA
genomic: TGCATTTCAGCGCTTATGTATTGAGACAGTGCCTTAATTCTCAACTCTTGgtgagtgtac ... tatttgccagGAAAATAGTCTAAATAGACCAGTGTGGTTATGATGCTTGTATCTGTAATAA
EST: gi|8528092|gb|AU092907.1|AU092907
EST:     TGCATTTCAGCGCTTATGTATTGAGACAGTGCCTTAATTCTCAACTCTTG                         GAAAATNGTCTAAATAGACCAGTGTGGTTATGATGCTTGTATCTGTAATAA
genomic: TGCATTTCAGCGCTTATGTATTGAGACAGTGCCTTAATTCTCAACTCTTGgtgagtgtac ... tatttgccagGAAAATAGTCTAAATAGACCAGTGTGGTTATGATGCTTGTATCTGTAATAA
EST: gi|88993399|gb|CI257827.1|CI257827
EST:     TGCATTTCAGCGCTTATGTATTGAGACAGTGCCTTAATTCTCAACTCTTG                         GAAAATAGTCTAAATAGACCAGTGTGGTTATGATGCTTGTATCTGTAATAA
genomic: TGCATTTCAGCGCTTATGTATTGAGACAGTGCCTTAATTCTCAACTCTTGgtgagtgtac ... tatttgccagGAAAATAGTCTAAATAGACCAGTGTGGTTATGATGCTTGTATCTGTAATAA

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: 45 (upstream exon), 54 (downstream exon)
Score: 6

AGACCATCTTGTGTTAATCCTGAAGCTATTGCACCTCCGTGCTAATCTCCTGCATTTCAGCGCTTATGTATTGAGACAGTGCCTTAATTCTCAACTCTTGgtgagtgtac ... tatttgccagGAAAATAGTCTAAATAGACCAGTGTGGTTATGATGCTTGTATCTGTAATAAATGTATCACTTGAAGAGGAAGGAGAGAAACCTCTTACTGGCTCATCTCA




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