Variant report

Variant	rs9631517
Chromosome Location	chr3:86840636-86840637
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 144 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:132)

rs_ID	r²[population]
rs10470570	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11127959	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11127961	0.82[AFR][1000 genomes]
rs11127962	0.82[AFR][1000 genomes]
rs11714652	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11718876	0.91[EUR][1000 genomes]
rs11718877	0.91[EUR][1000 genomes]
rs11718975	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11917335	0.81[EUR][1000 genomes]
rs12485477	0.87[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs12487818	0.90[EUR][1000 genomes]
rs12488464	0.87[AFR][1000 genomes]
rs12489293	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12489298	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12489313	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12493521	0.82[EUR][1000 genomes]
rs12495229	0.93[EUR][1000 genomes]
rs12495954	0.95[EUR][1000 genomes]
rs12637913	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12637947	0.90[EUR][1000 genomes]
rs13066960	0.85[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs13074432	0.90[YRI][hapmap]
rs13087636	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs13087787	0.86[YRI][hapmap]
rs1370212	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1437047	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1437048	0.90[EUR][1000 genomes]
rs1437049	0.96[EUR][1000 genomes]
rs1437055	0.81[EUR][1000 genomes]
rs1583577	0.96[EUR][1000 genomes]
rs1583578	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17364877	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2043685	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2083018	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2118188	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2118189	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2118190	0.90[EUR][1000 genomes]
rs2118191	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2118192	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2164647	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2324795	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28553515	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2875443	0.91[ASN][1000 genomes]
rs28894812	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35309716	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs36015800	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4425259	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4572769	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4855148	0.82[EUR][1000 genomes]
rs4855174	0.82[EUR][1000 genomes]
rs4859107	0.83[YRI][hapmap]
rs55719700	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56044242	0.83[EUR][1000 genomes]
rs59662471	0.91[EUR][1000 genomes]
rs6775872	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6779214	0.82[EUR][1000 genomes]
rs6781774	0.82[AMR][1000 genomes]
rs6782806	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6807530	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs728179	0.91[EUR][1000 genomes]
rs728180	0.96[EUR][1000 genomes]
rs73133829	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73137958	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73137985	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73139911	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73139914	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73139922	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73139923	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7628864	0.90[EUR][1000 genomes]
rs7630849	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7631441	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs920188	0.82[EUR][1000 genomes]
rs9284805	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9284807	0.83[AFR][1000 genomes]
rs9284809	0.85[AFR][1000 genomes]
rs9310025	0.83[AFR][1000 genomes]
rs9310026	0.83[AFR][1000 genomes]
rs9310028	0.87[AFR][1000 genomes]
rs9310029	0.87[AFR][1000 genomes]
rs9310030	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9310033	0.85[AFR][1000 genomes]
rs9310036	0.84[AFR][1000 genomes]
rs9310037	0.84[AFR][1000 genomes]
rs9310038	0.82[AFR][1000 genomes]
rs9310039	0.82[AFR][1000 genomes]
rs9682104	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9682583	0.82[AFR][1000 genomes]
rs9682971	0.84[AFR][1000 genomes]
rs9683172	0.85[AFR][1000 genomes]
rs9683187	0.85[AFR][1000 genomes]
rs9683191	0.85[AFR][1000 genomes]
rs9683301	0.87[AFR][1000 genomes]
rs9683310	0.87[AFR][1000 genomes]
rs9713014	0.85[AFR][1000 genomes]
rs9713018	0.83[AFR][1000 genomes]
rs9713389	0.82[AFR][1000 genomes]
rs9713410	0.82[AFR][1000 genomes]
rs9713421	0.81[AFR][1000 genomes]
rs9713432	0.84[AFR][1000 genomes]
rs9713574	0.83[AFR][1000 genomes]
rs9713693	0.82[AFR][1000 genomes]
rs9713794	0.82[AFR][1000 genomes]
rs9756702	0.86[AFR][1000 genomes]
rs9757447	0.87[AFR][1000 genomes]
rs9757801	0.85[AFR][1000 genomes]
rs9759006	0.85[AFR][1000 genomes]
rs9759053	0.86[AFR][1000 genomes]
rs9799281	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9815344	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9815450	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9816006	0.90[EUR][1000 genomes]
rs9818400	0.95[EUR][1000 genomes]
rs9819570	0.90[EUR][1000 genomes]
rs9819897	0.90[EUR][1000 genomes]
rs9821486	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9826119	0.85[AFR][1000 genomes]
rs9830914	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9833108	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9836383	0.80[AFR][1000 genomes]
rs9841059	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9844776	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9850281	0.91[EUR][1000 genomes]
rs9856526	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9858833	0.83[AFR][1000 genomes]
rs9859483	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9864625	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9866183	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9868576	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9881535	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9882953	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9985323	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9985324	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 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

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:86832000-86842400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr3:86835000-86841600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr3:86835600-86841600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:86836600-86841200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr3:86836600-86841600	Weak transcription	NHLF	lung
6	chr3:86836600-86864400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:86836800-86841600	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr3:86836800-86842200	Weak transcription	A549	lung
9	chr3:86837000-86841400	Weak transcription	HSMM	muscle
10	chr3:86837000-86841600	Weak transcription	Osteobl	bone
11	chr3:86838000-86841600	Weak transcription	NH-A	brain
12	chr3:86838200-86841600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr3:86838200-86841600	Weak transcription	HSMMtube	muscle
14	chr3:86840000-86841400	Weak transcription	Fetal Muscle Trunk	muscle
15	chr3:86840000-86841800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr3:86840600-86842400	Weak transcription	Hela-S3	cervix
17	chr3:86840600-86842600	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr3:86840600-86842600	Weak transcription	Fetal Lung	lung
19	chr3:86840600-86842800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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