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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTACGGATGGATGACATCCCCATCTTGTTGATGGAGTATGGAAAGCTGCTTTCCACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTGgtaagcgtccctgaactcaaccactgtgttggacacaatttttttttctactgctagttttctgtaactatgttatgcatcaccttcatccatgtgccttgtagaaggctagacactgctcacatccgctgacgagtacttctatgtcatcag

Basic information

species Oryza sativa
transcript LOC_Os03g61950.2
intron # 15
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|86488405|gb|CI131038.1|CI131038
EST:     TGCTTTCCACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTG                         AGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
genomic: TGCTTTCCACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTGgtaagcgtcc ... atgtcatcagAGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
EST: gi|88546559|gb|CI476210.1|CI476210
EST:     GCTTTCCACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTG                         AGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
genomic: GCTTTCCACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTGgtaagcgtcc ... atgtcatcagAGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
EST: gi|86599110|gb|CI355727.1|CI355727
EST:     TGCTTTCCACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTG                         AGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
genomic: TGCTTTCCACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTGgtaagcgtcc ... atgtcatcagAGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
EST: gi|44668058|gb|CR281492.1|CR281492
EST:     CCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTG                         AGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
genomic: CCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTGgtaagcgtcc ... atgtcatcagAGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
EST: gi|86503558|gb|CI146191.1|CI146191
EST:     TGCTTTCCACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTG                         AGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
genomic: TGCTTTCCACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTGgtaagcgtcc ... atgtcatcagAGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
EST: gi|88547608|gb|CI477916.1|CI477916
EST:     CACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTG                         AGAACATTAGAAGGCAAGGAAGCATANCTGCATACATGGCATGCTTTCACG
genomic: CACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTGgtaagcgtcc ... atgtcatcagAGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
EST: gi|86437317|gb|CI119039.1|CI119039
EST:     TGCTTTCCACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTG                         AGAACATTAGAAGGCAAGGATGCATAGCTGCATACATGGCATGCTTTCACG
genomic: TGCTTTCCACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTGgtaagcgtcc ... atgtcatcagAGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
EST: gi|88262375|gb|CI366149.1|CI366149
EST:     TTAGTTCTGACTCTTTACTTG                         AGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
genomic: TTAGTTCTGACTCTTTACTTGgtaagcgtcc ... atgtcatcagAGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
EST: gi|88259975|gb|CI363185.1|CI363185
EST:     GTTCTGACTCTTTACTTG                         AGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG
genomic: GTTCTGACTCTTTACTTGgtaagcgtcc ... atgtcatcagAGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACG

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: 74 (upstream exon), 69 (downstream exon)
Score: 24

TTACGGATGGATGACATCCCCATCTTGTTGATGGAGTATGGAAAGCTGCTTTCCACCTGAGGCTGGGATAGCATCTTAGTTCTGACTCTTTACTTGgtaagcgtcc ... atgtcatcagAGAACATTAGAAGGCAAGGAAGCATAGCTGCATACATGGCATGCTTTCACGATCTTCAGAGCTTGGTGGCATCAGAGCTTTGCTCCCTGCTCAAAAACGT




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