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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTCCGGGTAGCCGCCTCCGAACCCAGCCGAGAGCTCGAAGCCTTTCCTTACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagccgatccatggcgctcgctctccaatctccattgccgcactggggttttgtgttaatcatgtcgctaaattgtgtgttttgctttgtgcag

Basic information

species Oryza sativa
transcript LOC_Os03g04970.1
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|218499229|gb|FG943570.1|FG943570
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|58662224|gb|CK050904.1|CK050904
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88325659|gb|CI648098.1|CI648098
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88353857|gb|CI634648.1|CI634648
EST:     TAGTCTCTTGCCATGTACCGGGCGGCGGCCAGCCTCGCCTCCAAGGCCNG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88405616|gb|CI588822.1|CI588822
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|29634585|gb|CB639594.1|CB639594
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|58669928|gb|CK058614.1|CK058614
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88695499|gb|CI737537.1|CI737537
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88423126|gb|CI613427.1|CI613427
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88341982|gb|CI644319.1|CI644319
EST:     TACTCTCTTGCCATGTACCGCGCGGNGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88400418|gb|CI593493.1|CI593493
EST:     ACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCATCCAAGGCCCG                         TCAAGCCGGGAGC
genomic: ACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCC-TCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGC
EST: gi|2312198|gb|C28353.1|C28353
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88338587|gb|CI645841.1|CI645841
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88727663|gb|CI749465.1|CI749465
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|58669467|gb|CK058153.1|CK058153
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|58662507|gb|CK051193.1|CK051193
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88324939|gb|CI644950.1|CI644950
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88326100|gb|CI651154.1|CI651154
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|66914441|gb|CX101289.1|CX101289
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88302926|gb|CI668772.1|CI668772
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88332488|gb|CI651648.1|CI651648
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88329101|gb|CI658761.1|CI658761
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88363061|gb|CI616218.1|CI616218
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88723094|gb|CI746604.1|CI746604
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88347815|gb|CI655168.1|CI655168
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG
EST: gi|88302809|gb|CI668655.1|CI668655
EST:     TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCG                         TCAAGCCGGGAGCAGCGCTCGTCAG
genomic: TACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG

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: 72 (upstream exon), 74 (downstream exon)
Score: 36

GTCTCCGGGTAGCCGCCTCCGAACCCAGCCGAGAGCTCGAAGCCTTTCCTTACTCTCTTGCCATGTACCGCGCGGCGGCCAGCCTCGCCTCCAAGGCCCGgtgagttagc ... ctttgtgcagTCAAGCCGGGAGCAGCGCTCGTCAG




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