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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgctatttgttttgttataccttatgttttatcagctactcagctttattgagaaatcaaatatatacctatttttatttacgatccttcggtagtttctgatcattctggatccataccaatcatgcagGTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAGCATGGTGAAAGCACTATAACATTCTTCGGGAATTCATTCATAGCAG

Basic information

species Oryza sativa
transcript LOC_Os02g33080.2
intron # 6
splice site 3'
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|86256202|gb|CI007918.1|CI007918
EST:     CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTG                         GTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
genomic: CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTGgtactgctat ... aatcatgcagGTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
EST: gi|226698500|gb|GO497078.1|GO497078
EST:     CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTG                         GTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
genomic: CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTGgtactgctat ... aatcatgcagGTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
EST: gi|29667322|gb|CB663597.1|CB663597
EST:     CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTG                         GTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
genomic: CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTGgtactgctat ... aatcatgcagGTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
EST: gi|66923772|gb|CX110620.1|CX110620
EST:     ACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTG                         GTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
genomic: ACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTGgtactgctat ... aatcatgcagGTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
EST: gi|29639686|gb|CB644695.1|CB644695
EST:     CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTG                         GTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
genomic: CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTGgtactgctat ... aatcatgcagGTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
EST: gi|4715119|gb|AU056236.1|AU056236
EST:     CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTG                         GTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
genomic: CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTGgtactgctat ... aatcatgcagGTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
EST: gi|55410603|gb|CV722979.1|CV722979
EST:     CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTG                         GTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
genomic: CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTGgtactgctat ... aatcatgcagGTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
EST: gi|29671593|gb|CB667868.1|CB667868
EST:     CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTG                         GTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
genomic: CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTGgtactgctat ... aatcatgcagGTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
EST: gi|88440825|gb|CI693394.1|CI693394
EST:     CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTG                         GTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG
genomic: CCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTGgtactgctat ... aatcatgcagGTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAG

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: 75 (upstream exon), 73 (downstream exon)
Score: 106

GTTCTATCCAACTGCAATTGGTTCTGAGCCCCAGGATAATAACCTAGATTCCCGAGAACACTGGAAGCGCGTCATGCAAGGACATGCTGGTGCTAACCTGgtactgctat ... aatcatgcagGTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAGCATGGTGAAAGCACTATAACATTCTTCGGGAATTCATTCATAGCAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttacgatccttcggtagtttctgatcattctggatccataccaatcatgcagGTTCCCCTTGTTGCTTCTAACAGGATAGGAAGGGAAACCGTTGAGACTGAGCATGGTGAAAGCACTATAACATTCTTCGGGAATTCATTCATAGCAG
                     ttctgat  putative branch site (score: 106)