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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAATTTCTGAAGAAACCCGGGAAGATGCAAAACCTGGTGTGATTGACAGGATGGGATTTCCAAGTTCTGCTGAACCAAATACACACCGCAGTGAGAATTgtatgccctgtaccctcaacttccataccggatttacacactgctacaatttagttcaaatactattcaacaacattaatggtgcttgatttccttgcct...

Basic information

species Oryza sativa
transcript LOC_Os04g58130.1
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|58684637|gb|CK073324.1|CK073324
EST:     GATGGGATTTCCAAGTTCTGCTGAACCAAATACACACCGCAGTGAGAATT                         ATGTTTCTAGAATGCGTAAGCCAAGAGATAACTGCTATATTGAAGTTTCAA
genomic: GATGGGATTTCCAAGTTCTGCTGAACCAAATACACACCGCAGTGAGAATTgtatgccctg ... ctttttgtagATGTTTCTAGAATGCGTAAGCCAAGAGATAACTGCTATATTGAAGTTTCAA
EST: gi|29660533|gb|CB656808.1|CB656808
EST:     GATGGGATTTCCAAGTTCTGCTGAACCAAATACACACCGCAGTGAGAATT                         ATGTTTCTAGAATGCGTAAGCCAAGAGATAACTGCTATATTGAAGTTTCAA
genomic: GATGGGATTTCCAAGTTCTGCTGAACCAAATACACACCGCAGTGAGAATTgtatgccctg ... ctttttgtagATGTTTCTAGAATGCGTAAGCCAAGAGATAACTGCTATATTGAAGTTTCAA
EST: gi|58654816|gb|CK043496.1|CK043496
EST:     GATGGGATTTCCAAGTTCTGCTGAACCAAATACACACCGCAGTGAGAATT                         ATGTTTCTAGAATGCGTAAGCCAAGAGATAACTGCTATATTGAAGTTTCAA
genomic: GATGGGATTTCCAAGTTCTGCTGAACCAAATACACACCGCAGTGAGAATTgtatgccctg ... ctttttgtagATGTTTCTAGAATGCGTAAGCCAAGAGATAACTGCTATATTGAAGTTTCAA
EST: gi|33796149|gb|CF323940.1|CF323940
EST:     GATGGGATTTCCAAGTTCTGCTGAACCAAATACACACCGCAGTGAGAATT                         ATGTTTCTAGAATGCGTAAGCCAAGAGATAACTGCTATATTGAAGTTTCAA
genomic: GATGGGATTTCCAAGTTCTGCTGAACCAAATACACACCGCAGTGAGAATTgtatgccctg ... ctttttgtagATGTTTCTAGAATGCGTAAGCCAAGAGATAACTGCTATATTGAAGTTTCAA
EST: gi|58694610|gb|CK083297.1|CK083297
EST:     GATGGGATTTCCAAGTTCTGCTGAACCAAATACACACCGCAGTGAGAATT                         ATGTTTCTAGAATGCGTAAGCCAAGAGATAACTGCTATATTGAAGTTTCAA
genomic: GATGGGATTTCCAAGTTCTGCTGAACCAAATACACACCGCAGTGAGAATTgtatgccctg ... ctttttgtagATGTTTCTAGAATGCGTAAGCCAAGAGATAACTGCTATATTGAAGTTTCAA

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), 66 (downstream exon)
Score: 16

GGAATTTCTGAAGAAACCCGGGAAGATGCAAAACCTGGTGTGATTGACAGGATGGGATTTCCAAGTTCTGCTGAACCAAATACACACCGCAGTGAGAATTgtatgccctg ... ctttttgtagATGTTTCTAGAATGCGTAAGCCAAGAGATAACTGCTATATTGAAGTTTCAAGAGCAG




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