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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGAGAACATAATCTTTGGGCATTCTCTGTGGTTGATCTCTGAAAAAGGTATCAAACAGCCTGCAAATTAGGTCTCCTGCTCTTTCCATCAAAATGTCAGgtatcattttttttcttatcttatttatatatttgtgatgggttgctgatgaaatggttgctcattagtttactaatgggtgctattgtgctttgtgtgtaaag

Basic information

species Oryza sativa
transcript LOC_Os08g25310.1
intron # 2
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|86834486|gb|CI344422.1|CI344422
EST:     ATCAAACAGCCTGCAAATTAGGTCTCCTGCTCTTTCCATCAAAATGTCAG                         TTCGGCGCCGATCAGAGAGTATGGAGGGCCTGTTCTCGTTTGACGAGAGGA
genomic: ATCAAACAGCCTGCAAATTAGGTCTCCTGCTCTTTCCATCAAAATGTCAGgtatcatttt ... gtgtgtaaagTTCGGCGCCGATCAGAGAGTATGGAGGGCCTGTTCTCGTTTGACGAGAGGA
EST: gi|29638640|gb|CB643649.1|CB643649
EST:     ATCAAACAGCCTGCAAATTAGGTCTCCTGCTCTTTCCATCAAAATGTCAG                         TTCGGCGCCGATCAGAGAGTATGGAGGGCCTGTTCTCGTTTGACGAGAGGA
genomic: ATCAAACAGCCTGCAAATTAGGTCTCCTGCTCTTTCCATCAAAATGTCAGgtatcatttt ... gtgtgtaaagTTCGGCGCCGATCAGAGAGTATGGAGGGCCTGTTCTCGTTTGACGAGAGGA
EST: gi|88355117|gb|CI651820.1|CI651820
EST:     ATCAAACAGCCTGCAAATTAGGTCTCCTGCTCTTTCCATCAAAATGTCAG                         TTCGGCGCCGATCAGAGAGTATGGAGGGCCTGTTCTCGTTTGACGAGAGGA
genomic: ATCAAACAGCCTGCAAATTAGGTCTCCTGCTCTTTCCATCAAAATGTCAGgtatcatttt ... gtgtgtaaagTTCGGCGCCGATCAGAGAGTATGGAGGGCCTGTTCTCGTTTGACGAGAGGA
EST: gi|29675314|gb|CB671589.1|CB671589
EST:     ATCAAACAGCCTGCAAATTAGGTCTCCTGCTCTTTCCATCAAAATGTCAG                         TTCGGCGCCGATCAGAGAGTATGGAGGGCCTGTTCTCGTTTGACGAGAGGA
genomic: ATCAAACAGCCTGCAAATTAGGTCTCCTGCTCTTTCCATCAAAATGTCAGgtatcatttt ... gtgtgtaaagTTCGGCGCCGATCAGAGAGTATGGAGGGCCTGTTCTCGTTTGACGAGAGGA

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), 75 (downstream exon)
Score: 10

AAGAGAACATAATCTTTGGGCATTCTCTGTGGTTGATCTCTGAAAAAGGTATCAAACAGCCTGCAAATTAGGTCTCCTGCTCTTTCCATCAAAATGTCAGgtatcatttt ... gtgtgtaaagTTCGGCGCCGATCAGAGAGTATGGAGGGCCTGTTCTCGTTTGACGAGAGGAAAGATCGAAGGTCAGATGTGGAGAACTCGGAGGACGAGCGGAGAAGGCT




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