Variant report

Variant	rs728179
Chromosome Location	chr3:86847664-86847665
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs11127959	0.84[EUR][1000 genomes]
rs11714652	0.91[EUR][1000 genomes]
rs11718876	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11718877	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11917335	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11919691	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12487818	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12489293	0.90[EUR][1000 genomes]
rs12489298	0.90[EUR][1000 genomes]
rs12489313	0.90[EUR][1000 genomes]
rs12493521	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12495229	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12495954	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12637913	0.81[EUR][1000 genomes]
rs12637947	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1370209	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1370210	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1370212	0.81[EUR][1000 genomes]
rs1437047	0.88[EUR][1000 genomes]
rs1437048	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1437049	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1437055	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1583577	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1583578	0.90[EUR][1000 genomes]
rs17364877	0.81[EUR][1000 genomes]
rs2043685	0.91[EUR][1000 genomes]
rs2083018	0.84[EUR][1000 genomes]
rs2118188	0.90[EUR][1000 genomes]
rs2118189	0.90[EUR][1000 genomes]
rs2118190	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2118191	0.91[EUR][1000 genomes]
rs2118192	0.91[EUR][1000 genomes]
rs2164647	0.90[EUR][1000 genomes]
rs2324795	0.90[EUR][1000 genomes]
rs28453822	0.81[EUR][1000 genomes]
rs28553515	0.89[EUR][1000 genomes]
rs28894812	0.91[EUR][1000 genomes]
rs35309716	0.81[EUR][1000 genomes]
rs36015800	0.90[EUR][1000 genomes]
rs4425259	0.90[EUR][1000 genomes]
rs4572769	0.92[EUR][1000 genomes]
rs4855148	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4855174	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55711545	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56044242	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs57877392	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs59662471	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6777551	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6779214	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6782806	0.90[EUR][1000 genomes]
rs6807530	0.91[EUR][1000 genomes]
rs728180	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73137958	0.90[EUR][1000 genomes]
rs73137985	0.90[EUR][1000 genomes]
rs73139911	0.90[EUR][1000 genomes]
rs73139914	0.90[EUR][1000 genomes]
rs73139922	0.90[EUR][1000 genomes]
rs73139923	0.90[EUR][1000 genomes]
rs7628864	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7630849	0.91[EUR][1000 genomes]
rs7631441	0.81[EUR][1000 genomes]
rs920188	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9310034	0.80[EUR][1000 genomes]
rs9631517	0.91[EUR][1000 genomes]
rs9681954	0.80[EUR][1000 genomes]
rs9756254	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9757252	0.80[EUR][1000 genomes]
rs9815344	0.84[EUR][1000 genomes]
rs9815450	0.84[EUR][1000 genomes]
rs9816006	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9818400	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9819570	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9819897	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9821486	0.83[EUR][1000 genomes]
rs9830910	0.82[EUR][1000 genomes]
rs9833108	0.83[EUR][1000 genomes]
rs9841059	0.83[EUR][1000 genomes]
rs9844776	0.91[EUR][1000 genomes]
rs9850281	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9862624	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9864625	0.90[EUR][1000 genomes]
rs9866183	0.82[EUR][1000 genomes]
rs9881535	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877116	chr3:86518318-86964922	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv877117	chr3:86665408-86927574	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv877118	chr3:86722823-86927574	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv877119	chr3:86722823-86952516	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv877120	chr3:86722823-86961118	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv877121	chr3:86732817-86916882	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv877122	chr3:86732817-86927574	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv877123	chr3:86732817-86952516	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv877125	chr3:86794501-86916882	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv877126	chr3:86794501-86927574	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	nsv519148	chr3:86831077-86995124	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv877127	chr3:86832039-86952516	Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv1008177	chr3:86841615-86905761	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
14	nsv877128	chr3:86845934-86952516	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
15	nsv877129	chr3:86845934-86964922	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:86836600-86864400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:86844000-86849400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:86844600-86849400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr3:86844600-86849600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr3:86844600-86850800	Weak transcription	HSMM	muscle
6	chr3:86844800-86848000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr3:86844800-86849000	Weak transcription	NHDF-Ad	bronchial
8	chr3:86847200-86848200	Enhancers	Muscle Satellite Cultured Cells	--
9	chr3:86847200-86848400	Enhancers	Osteobl	bone

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