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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAATTCTCGTAGCGGAACAAGGAGCTCGCTTCAGAAGATCAATGAAGTACCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatacaagtcaaattatataacatgttgtttgcatttatcttgtttgtcttacttaatttgtacatgcag

Basic information

species Oryza sativa
transcript LOC_Os12g01140.1
intron # 5
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|29624477|gb|CB629488.1|CB629488
EST:     CCTGATCAAGTGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|29681859|gb|CB678134.1|CB678134
EST:     CCTGATCAAGTGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|29624448|gb|CB629459.1|CB629459
EST:     CCTGATCAAGTGAATAGAACTAGAGAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|29641853|gb|CB646860.1|CB646860
EST:     CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|29628293|gb|CB633304.1|CB633304
EST:     CCTGATCAAGTGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|29678744|gb|CB675019.1|CB675019
EST:     CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|29627346|gb|CB632357.1|CB632357
EST:     CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|29630466|gb|CB635475.1|CB635475
EST:     CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|29674378|gb|CB670653.1|CB670653
EST:     CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|29624450|gb|CB629461.1|CB629461
EST:     CCTGATCAAGTGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|58593934|gb|CF992242.1|CF992242
EST:     CCTGATCAAGTGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|58592396|gb|CF990704.1|CF990704
EST:     CCTGATCAAGTGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|66924760|gb|CX111608.1|CX111608
EST:     CCTGATCAAGTGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|29630119|gb|CB635128.1|CB635128
EST:     CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|29646710|gb|CB651717.1|CB651717
EST:     CCTGATCAAGTGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAG
EST: gi|29623832|gb|CB628843.1|CB628843
EST:     CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGG                         TTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCT
genomic: CCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCT

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), 71 (downstream exon)
Score: 26

GAAATTCTCGTAGCGGAACAAGGAGCTCGCTTCAGAAGATCAATGAAGTACCTGATCAAGGGAATAGAACTAGAAAATCTGGTCTGCGTGCATTTATGGGgtatgcatac ... gtacatgcagTTTTCTTGGTATGGGCCATGGAAGTGTAGAGAAGAACATGCTGAAACCTAGAGATGAAGATCCACTGATCGATAGTGATGATGAAAGACCTGAGAGCTTT




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