Variant report

Variant	rs337714
Chromosome Location	chr5:113752117-113752118
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1013168	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs1072922	0.88[JPT][hapmap]
rs12188044	0.86[JPT][hapmap]
rs13155731	0.88[JPT][hapmap]
rs13163662	0.88[JPT][hapmap]
rs13173796	0.88[JPT][hapmap]
rs13174521	0.88[JPT][hapmap]
rs13176052	0.88[JPT][hapmap]
rs13179135	0.86[JPT][hapmap]
rs13181189	0.86[JPT][hapmap]
rs13183393	0.88[JPT][hapmap]
rs13184658	0.88[JPT][hapmap]
rs13186627	0.88[JPT][hapmap]
rs13187753	0.88[JPT][hapmap]
rs13190428	0.88[JPT][hapmap]
rs1457760	0.88[JPT][hapmap]
rs1457762	0.88[JPT][hapmap]
rs163210	0.80[CEU][hapmap];0.83[GIH][hapmap];0.88[JPT][hapmap];0.83[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs163211	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs168090	0.84[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2125146	0.88[JPT][hapmap]
rs2900084	0.84[ASN][1000 genomes]
rs337683	0.81[ASW][hapmap];0.84[CEU][hapmap];0.92[CHB][hapmap];0.87[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.93[TSI][hapmap];0.85[YRI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs337684	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs337685	0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs337689	0.87[ASW][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];0.92[ASN][1000 genomes]
rs337691	0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs337695	0.81[ASN][1000 genomes]
rs337699	0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs337704	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs337705	0.93[ASW][hapmap];0.83[CEU][hapmap];0.92[CHB][hapmap];0.83[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs337707	0.96[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs337708	0.80[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs337709	0.96[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs337710	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs337711	0.80[CEU][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs337712	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs338622	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs338623	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs338625	0.81[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs338663	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs338664	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs338666	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36938	0.85[CHB][hapmap]
rs36946	0.85[CHB][hapmap];0.83[CHD][hapmap]
rs36947	0.88[ASN][1000 genomes]
rs36949	0.88[JPT][hapmap]
rs36950	0.88[JPT][hapmap]
rs3857431	0.88[JPT][hapmap]
rs388084	0.86[ASW][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs4705504	0.88[JPT][hapmap]
rs4705665	0.88[JPT][hapmap]
rs4705667	0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs4705668	0.88[JPT][hapmap]
rs6859284	1.00[ASW][hapmap];0.84[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.87[MEX][hapmap];0.87[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs921981	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830451	chr5:113684301-113829833	Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv882729	chr5:113743628-114497708	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs337714	COMMD10	cis	parietal	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:113742600-113753200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr5:113744800-113753200	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr5:113744800-113754200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr5:113749600-113756000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr5:113751400-113752200	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr5:113751600-113752200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr5:113751800-113752200	Enhancers	Brain Anterior Caudate	brain
8	chr5:113752000-113752200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr5:113752000-113752200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr5:113752000-113752200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr5:113752000-113752200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr5:113752000-113752200	Flanking Active TSS	Liver	Liver
13	chr5:113752000-113753000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr5:113752000-113754000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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