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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCACTATTACTACCACTCCCCCTCGCCTTCTCCGCCTCCACAGCGACCAGCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacccgcttcctcctccctcgtccccgatccgtgccgcccacctcctcgctcgctgtgcgtggcgcggtgtttcactgatctgtgctttgcggg...

Basic information

species Oryza sativa
transcript LOC_Os08g23810.1
intron # 1
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|428588|gb|D24740.1|D24740
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88317317|gb|CI627966.1|CI627966
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|58659884|gb|CK048564.1|CK048564
EST:     CAGCCGCGCCGAGCTCCTCAGATCCCTCGTGCATTCCGCCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: CAGCCGCGCCGAGCTCC-CAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88717633|gb|CI741143.1|CI741143
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         C
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcag-
EST: gi|88717633|gb|CI741143.1|CI741143
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         C
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcag-
EST: gi|88717633|gb|CI741143.1|CI741143
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         C
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcag-
EST: gi|88719502|gb|CI743012.1|CI743012
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88370877|gb|CI594989.1|CI594989
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATT-CACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88728555|gb|CI752065.1|CI752065
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88294433|gb|CI667407.1|CI667407
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88395429|gb|CI612951.1|CI612951
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88307608|gb|CI643459.1|CI643459
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88399474|gb|CI606095.1|CI606095
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|33795136|gb|CF323441.1|CF323441
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGCAG                       
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCC--G-AGgtgagccacc ... gatgcagc
EST: gi|58672850|gb|CK061536.1|CK061536
EST:     CAGCCGCGCCGAGCTCCTCAGATCCCTCGTGCATTCCGCCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: CAGCCGCGCCGAGCTCC-CAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88407492|gb|CI586333.1|CI586333
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|29613728|gb|CB618741.1|CB618741
EST:     CTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: CTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88350148|gb|CI622079.1|CI622079
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTAACGGTATGCATATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88329899|gb|CI651576.1|CI651576
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGCAG                       
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCC--G-AGgtgagccacc ... gatgcagc
EST: gi|88574877|gb|CI666646.1|CI666646
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88449350|gb|CI582222.1|CI582222
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88327289|gb|CI645066.1|CI645066
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGCAG                       
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCC--G-AGgtgagccacc ... gatgcagc
EST: gi|88370906|gb|CI595018.1|CI595018
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|33691058|gb|CF319297.1|CF319297
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88326669|gb|CI658391.1|CI658391
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCANCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88719687|gb|CI743197.1|CI743197
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88721496|gb|CI744795.1|CI744795
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88330328|gb|CI633530.1|CI633530
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGCAG                       
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCC--G-AGgtgagccacc ... gatgcagc
EST: gi|58679709|gb|CK068396.1|CK068396
EST:     CAGCCGCGCCGAGCTCCTCAGATCCCTCGTGCATTCCGCCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: CAGCCGCGCCGAGCTCC-CAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88333772|gb|CI643804.1|CI643804
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|88399311|gb|CI618501.1|CI618501
EST:     GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTGCCGGTATGCAGATGGTGGCTGCACGCCC
genomic: GCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
EST: gi|66924970|gb|CX111818.1|CX111818
EST:     CGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAG                         GACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC
genomic: CGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCC

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: 32 (upstream exon), 75 (downstream exon)
Score: 6

CCCACTATTACTACCACTCCCCCTCGCCTTCTCCGCCTCCACAGCGACCAGCAGCCGCGCCGAGCTCCCAGATCCCTCGTGCATTCCACCTTCTCCCGAGgtgagccacc ... gatgcagcagGACGATGGGCGCTTCTGCAGCTACCGGTATGCAGATGGTGGCTGCACGCCCCTGCATCTCAGCCTCCCAGGGAATGCTTACTTCCAGGGCGGCGGTCTCC




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