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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATAGACCAATGTATTCATCCAGCAGCGGTATTCCGCCCAGCGTTGATCCGAACTTCGTTTCCTCTGTTGAGCCACTCTTGCTTAACCACAAGgtaagattggaatgcagctttagtcacacttaaatctaccttcataagttcatagaatactagactatagaaggatgttttgatttatgatgaacag

Basic information

species Oryza sativa
transcript LOC_Os01g58640.1
intron # 10
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|29681233|gb|CB677508.1|CB677508
EST:     TTGATCCGAACTTCGTTTCCTCTGTTGAGCCACTCTTGCTTAACCACAAG                         GTCGATTTGGTCTTCTTTGGCCATGTACACAACTACGAGAGAACGTGTGCG
genomic: TTGATCCGAACTTCGTTTCCTCTGTTGAGCCACTCTTGCTTAACCACAAGgtaagattgg ... tgatgaacagGTCGATTTGGTCTTCTTTGGCCATGTACACAACTACGAGAGAACGTGTGCG
EST: gi|58593137|gb|CF991445.1|CF991445
EST:     TTGATCCGAACTTCGTTTCCTCTGTTGAGCCACTCTTGCTTAACCACGGG                         GTCGATTTGGTCTTCTTTGGCCATGTACACAACTACGAGAGAACGTGTGCG
genomic: TTGATCCGAACTTCGTTTCCTCTGTTGAGCCACTCTTGCTTAACCACAAGgtaagattgg ... tgatgaacagGTCGATTTGGTCTTCTTTGGCCATGTACACAACTACGAGAGAACGTGTGCG
EST: gi|87015622|gb|CI277580.1|CI277580
EST:     TTGATCCGAACTTCGTTTCCTCTGTTGAGCCACTCTTGCTTAACCACAAG                         GTCGATTTGGTCTTCTTTGGCCATGTACACAACTACGAGAGAACGTGTGCG
genomic: TTGATCCGAACTTCGTTTCCTCTGTTGAGCCACTCTTGCTTAACCACAAGgtaagattgg ... tgatgaacagGTCGATTTGGTCTTCTTTGGCCATGTACACAACTACGAGAGAACGTGTGCG
EST: gi|66915919|gb|CX102767.1|CX102767
EST:     TTGATCCGAACTTCGTTTCCTCTGTTGAGCCACTCTTGCTTAACCACAAG                         GTCGATTTGGTCTTCTTTGGCCATGTACACAACTACGAGAGAACGTGTGCG
genomic: TTGATCCGAACTTCGTTTCCTCTGTTGAGCCACTCTTGCTTAACCACAAGgtaagattgg ... tgatgaacagGTCGATTTGGTCTTCTTTGGCCATGTACACAACTACGAGAGAACGTGTGCG
EST: gi|29668284|gb|CB664559.1|CB664559
EST:     TTGATCCGAACTTCGTTTCCTCTGTTGAGCCACTCTTGCTTAACCACAAG                         GTCGATTTGGTCTTCTTTGGCCATGTACACAACTACGAGAGAACGTGTGCG
genomic: TTGATCCGAACTTCGTTTCCTCTGTTGAGCCACTCTTGCTTAACCACAAGgtaagattgg ... tgatgaacagGTCGATTTGGTCTTCTTTGGCCATGTACACAACTACGAGAGAACGTGTGCG

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: 72 (upstream exon), 71 (downstream exon)
Score: 5

GCATAGACCAATGTATTCATCCAGCAGCGGTATTCCGCCCAGCGTTGATCCGAACTTCGTTTCCTCTGTTGAGCCACTCTTGCTTAACCACAAGgtaagattgg ... tgatgaacagGTCGATTTGGTCTTCTTTGGCCATGTACACAACTACGAGAGAACGTGTGCGGTATACCAGGGCAATTGCAAAGGCATGCCAAAGAAGGACGCAAAAGGAG




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