Variant report

Variant	rs12153178
Chromosome Location	chr5:52674844-52674845
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs1030227	0.82[CHB][hapmap]
rs10805447	0.81[ASN][1000 genomes]
rs10805448	0.83[ASN][1000 genomes]
rs10940312	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10940313	0.84[ASN][1000 genomes]
rs11738755	0.84[ASN][1000 genomes]
rs11740067	0.82[ASN][1000 genomes]
rs11740573	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11741921	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11742633	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11743473	0.84[ASN][1000 genomes]
rs11744360	0.82[ASN][1000 genomes]
rs11745102	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11746341	0.82[ASN][1000 genomes]
rs11747948	0.83[ASN][1000 genomes]
rs11748130	0.82[ASN][1000 genomes]
rs11748901	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12153556	0.87[ASN][1000 genomes]
rs12153680	0.84[ASN][1000 genomes]
rs13153643	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13156108	0.82[ASN][1000 genomes]
rs13157909	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13161996	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13162095	0.82[ASN][1000 genomes]
rs13162472	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13163048	0.84[ASN][1000 genomes]
rs13163361	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13167150	0.82[ASN][1000 genomes]
rs13169091	0.82[ASN][1000 genomes]
rs13169122	0.82[ASN][1000 genomes]
rs13170709	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13174728	0.84[ASN][1000 genomes]
rs13175176	0.82[ASN][1000 genomes]
rs13176442	0.82[ASN][1000 genomes]
rs13176460	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13178720	0.84[ASN][1000 genomes]
rs13179666	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13188772	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13189230	0.82[ASN][1000 genomes]
rs1423549	0.91[ASN][1000 genomes]
rs1423559	0.91[ASN][1000 genomes]
rs34274925	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34437756	0.82[ASN][1000 genomes]
rs34444043	0.80[ASN][1000 genomes]
rs34483113	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34492969	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34690366	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34737247	0.84[ASN][1000 genomes]
rs34744728	0.83[ASN][1000 genomes]
rs34750307	0.83[ASN][1000 genomes]
rs34762534	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34924451	0.83[ASN][1000 genomes]
rs35152485	0.82[ASN][1000 genomes]
rs35257227	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35314846	0.84[ASN][1000 genomes]
rs35573280	0.82[ASN][1000 genomes]
rs35581888	0.83[ASN][1000 genomes]
rs35636180	0.84[ASN][1000 genomes]
rs36125518	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4254863	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4279297	0.93[ASN][1000 genomes]
rs4421065	0.83[ASN][1000 genomes]
rs56285131	0.82[ASN][1000 genomes]
rs62357814	0.84[ASN][1000 genomes]
rs62357815	0.84[ASN][1000 genomes]
rs62357825	0.82[ASN][1000 genomes]
rs62357827	0.82[ASN][1000 genomes]
rs71592629	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs71619953	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949005	chr5:52188028-52808229	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	esv2752745	chr5:52422063-53343529	Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv830297	chr5:52492494-52707758	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv508356	chr5:52646168-52703120	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv1032632	chr5:52667145-53655624	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	esv2763453	chr5:52668739-52682374	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv517020	chr5:52670974-52677451	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv520889	chr5:52670974-52684170	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:52673600-52675200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr5:52673800-52675000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr5:52674000-52675200	Enhancers	Muscle Satellite Cultured Cells	--
4	chr5:52674000-52675400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr5:52674200-52675000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr5:52674200-52675000	Enhancers	NH-A	brain
7	chr5:52674200-52675200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr5:52674200-52675200	Enhancers	Hela-S3	cervix
9	chr5:52674200-52675200	Enhancers	HMEC	breast
10	chr5:52674200-52675200	Enhancers	NHEK	skin
11	chr5:52674200-52675400	Enhancers	NHLF	lung
12	chr5:52674400-52675000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr5:52674400-52675000	Enhancers	A549	lung
14	chr5:52674400-52675000	Enhancers	HUVEC	blood vessel
15	chr5:52674600-52675000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr5:52674600-52675000	Flanking Active TSS	NHDF-Ad	bronchial
17	chr5:52674600-52675000	Flanking Active TSS	Osteobl	bone
18	chr5:52674800-52675200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

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