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Gene ID/Symbol/Name (e.g., LOC_Os01g08570 or hwh1 or Os01g0180900 or gly%ltransferase, note: wildcard character '%' is also acceptable.):
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Search Results:

4 variations found. Os12g0203500/LOC_Os12g10250 (zinc finger family protein; putative; expressed), ranging from 5,415,960 bp to 5,417,674 bp (including 0 kb upstream and 0 kb downstream of the gene).

Gene IDAnnotation
LOC_Os12g10250 zinc finger family protein, putative, expressed; RAP ID: Os12g0203500; MSU ID: LOC_Os12g10250

Gene Expression Atlas:

The expression data is from the CREP database. And the expression value is log2-transformed. Move the mouse over the cells of the heat map to get detailed tissue information and expression values.

Variation Map (with Chromatin Accessibility Map/ Non-coding Varation Scores Map) in Searched Region:

The 'big effect' variations are marked out:

ColorExplainDetails
red High impact variants defined by snpEff 'STOP_LOST', 'START_LOST', 'STOP_GAINED', 'FRAME_SHIFT' et. al., the details can be found at http://snpef f.sourceforge.net/SnpEff_manual.html#eff.
purple 'Damaging' or 'probably damaging' non-synonymous SNPs defined by PolyPhen-2 This is a qualitative result of nonsynonymous SNP annotation, where 'damaging' or 'probably damaging' means that the variant is more likely to affect protein function. Details can be found here.

Detailed Variation Information:

Var ID Chrom Position Primary Allele Secondary Allele Primary Allele Frequency DEL Frequency Var GWAS Results Effect
vg1205416356 (J) chr12 5416356 G C 37.60% 61.96% G -> C NA
LOC_Os12g10250.1 Alt: C| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
LOC_Os12g10250.1 Alt: DEL/frameshift_variant(CooVar)
The average chromatin accessibility score: 17.653; most accessible tissue: Callus, score: 50.768
vg1205417079 (J) chr12 5417079 T C 37.40% 61.34% T -> C NA
LOC_Os12g10250.1 Alt: C| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)
LOC_Os12g10250.1 Alt: DEL/frameshift_variant(CooVar)
The average chromatin accessibility score: 11.046; most accessible tissue: Callus, score: 30.606
vg1205417446 (J) chr12 5417446 C T 36.90% 62.12% C -> T NA
LOC_Os12g10250.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os12g10250.1 Alt: T| synonymous_variant LOW(snpEff)/synonymous_codon(CooVar)
The average chromatin accessibility score: 12.138; most accessible tissue: Callus, score: 47.055
vg1205417508 (J) chr12 5417508 G A 25.90% 62.12% G -> A NA
LOC_Os12g10250.1 Alt: DEL/frameshift_variant(CooVar)
LOC_Os12g10250.1 Alt: A| missense_variant MODERATE(snpEff)/nonsynonymous_codon(CooVar)
The average chromatin accessibility score: 12.679; most accessible tissue: Callus, score: 47.055