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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGAAAGAGAAAAATCTCCCGGGGCGTCTCGTCGTCTCCTCCGCTCCTCGCGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTGgtgagcatccacatcctctttctgattcatgtttctggtgagcaccaggagtacttacatctggaatttgcttgcgttaaccctagcttctcttctaggtctggaagaagctcttctcctccttaaacctctcttaatacaactagtagtaacagtttgttggatccgccccttgtcttgcag

Basic information

species Oryza sativa
transcript LOC_Os06g01450.1
intron # 1
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|88423828|gb|CI609859.1|CI609859
EST:     CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTG                         GTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
genomic: CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTGgtgagcatcc ... tgtcttgcagGTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
EST: gi|88434333|gb|CI589398.1|CI589398
EST:     CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTG                         GTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
genomic: CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTGgtgagcatcc ... tgtcttgcagGTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
EST: gi|88371495|gb|CI602673.1|CI602673
EST:     CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTG                         GTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
genomic: CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTGgtgagcatcc ... tgtcttgcagGTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
EST: gi|88386173|gb|CI570808.1|CI570808
EST:     CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTG                         GTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
genomic: CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTGgtgagcatcc ... tgtcttgcagGTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
EST: gi|88441461|gb|CI599517.1|CI599517
EST:     CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTG                         GTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
genomic: CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTGgtgagcatcc ... tgtcttgcagGTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
EST: gi|58670983|gb|CK059669.1|CK059669
EST:     CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTG                         GTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
genomic: CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTGgtgagcatcc ... tgtcttgcagGTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
EST: gi|88354855|gb|CI614133.1|CI614133
EST:     CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTG                         GTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
genomic: CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTGgtgagcatcc ... tgtcttgcagGTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
EST: gi|88317096|gb|CI626739.1|CI626739
EST:     CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTG                         GTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
genomic: CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTGgtgagcatcc ... tgtcttgcagGTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
EST: gi|88412959|gb|CI578810.1|CI578810
EST:     CGCAGGACGAGTCGCGGGTGCCGATCTCCATCTGCGCCAGGGGAATCCTG                         GTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT
genomic: CGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTGgtgagcatcc ... tgtcttgcagGTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGT

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: 73 (upstream exon), 70 (downstream exon)
Score: 14

AAGAAAGAGAAAAATCTCCCGGGGCGTCTCGTCGTCTCCTCCGCTCCTCGCGCAGGACGAGTCGCGGCTGCCGATCTCCATCTGCGCCAGGGGAATCCTGgtgagcatcc ... tgtcttgcagGTGTAATGGCAAAAGAGCAGAGTGGATCCCCTAAGCCCAGGCAGCCAGTGTTCCAAAGGATGCGAGTAACGTTAACCATAGGTGTTATTGGCCTCTGTGT




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