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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGAAATATGGAATTGATAGAATTGTTTGTACCTTACCACGGATGTATCAGgtactacactaatgttcaatatttgtttttagaatgatatgcaaaagttgaatgatttctgatcatattttttgctgagcag

Basic information

species Oryza sativa
transcript LOC_Os03g21950.1
intron # 7
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|58692734|gb|CK081421.1|CK081421
EST:     TGAAATATGGAATTGATAGAATNGTTTGTACCTTACCACGGATGTATCAG                         CTTGCTCAAGGTGGAACTGCAGTTGGAACGGGCTTGAACACTAAGAAAGG
genomic: TGAAATATGGAATTGATAGAATTGTTTGTACCTTACCACGGATGTATCAGgtactacact ... tgctgagcagCTTGCTCAAGGTGGAACTGCAGTTGGAACGGGCTTGAACACTAAGAAAGG
EST: gi|33795747|gb|CF323743.1|CF323743
EST:     TGAAATATGGAATTGATAGAATTGTTTGTACCTTACCACGGATGTATCAG                         CTTGCTCAAGGTGGAACTGCAGTTGGAACGGGCTTG
genomic: TGAAATATGGAATTGATAGAATTGTTTGTACCTTACCACGGATGTATCAGgtactacact ... tgctgagcagCTTGCTCAAGGTGGAACTGCAGTTGGAACGGGCTTG
EST: gi|58662738|gb|CK051424.1|CK051424
EST:     TGAAATATGGAATTGATAGAATTGTTTGTACCTTACCACGGATGTATCAG                         CTTGCTCAAGGTGGAACTGCAGTTGGAACGGGCTTGAACACTAAGAAAGG
genomic: TGAAATATGGAATTGATAGAATTGTTTGTACCTTACCACGGATGTATCAGgtactacact ... tgctgagcagCTTGCTCAAGGTGGAACTGCAGTTGGAACGGGCTTGAACACTAAGAAAGG
EST: gi|33676561|gb|CF304800.1|CF304800
EST:     TGAAATATGGAATTGATAGAATTGTTTGTACCTTACCACGGATGTATCAG                         CTTGCTCAAGGTGGAACTGCAGTTGGAACGGGCTTGAACACTAAGAAAGGA
genomic: TGAAATATGGAATTGATAGAATTGTTTGTACCTTACCACGGATGTATCAGgtactacact ... tgctgagcagCTTGCTCAAGGTGGAACTGCAGTTGGAACGGGCTTGAACACTAAGAAAGGA
EST: gi|33674910|gb|CF303149.1|CF303149
EST:     TGAAATATGGAATTGATAGAATTGTTTGTACCTTACCACGGATGTATCAG                         CTTGCTCAAGGTGGAACTGCAGTTGGAACGGGCTTGAACACTAAGAAAGG
genomic: TGAAATATGGAATTGATAGAATTGTTTGTACCTTACCACGGATGTATCAGgtactacact ... tgctgagcagCTTGCTCAAGGTGGAACTGCAGTTGGAACGGGCTTGAACACTAAGAAAGG

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: 67 (upstream exon), 66 (downstream exon)
Score: 29

GTGAAATATGGAATTGATAGAATTGTTTGTACCTTACCACGGATGTATCAGgtactacact ... tgctgagcagCTTGCTCAAGGTGGAACTGCAGTTGGAACGGGCTTGAACACTAAGAAAGG




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