Variant report

Variant	rs9879764
Chromosome Location	chr3:97899294-97899295
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 164 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:135)

rs_ID	r²[population]
rs10212222	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10212442	0.81[EUR][1000 genomes]
rs11914600	0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs12490240	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12636120	0.82[CHB][hapmap];0.95[JPT][hapmap];0.93[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs12695680	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13069991	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13084481	0.82[EUR][1000 genomes]
rs13085972	0.84[ASN][1000 genomes]
rs13088901	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13088925	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13089085	0.82[EUR][1000 genomes]
rs13089648	0.81[EUR][1000 genomes]
rs13090781	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13090994	0.81[EUR][1000 genomes]
rs13323695	0.83[EUR][1000 genomes]
rs1391151	0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap]
rs1908999	0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs34302871	0.80[EUR][1000 genomes]
rs35518141	0.84[ASN][1000 genomes]
rs4133320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4133321	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4241467	0.92[CEU][hapmap];0.87[CHB][hapmap];0.93[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap]
rs4260478	0.83[EUR][1000 genomes]
rs4271951	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4282103	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4286458	0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs4345108	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4358331	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4368543	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4376074	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4414896	0.83[EUR][1000 genomes]
rs4446253	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4464499	0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs4467498	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4482695	0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs4508826	0.83[EUR][1000 genomes]
rs4549314	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4550855	0.81[CHB][hapmap];0.82[CHD][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap]
rs4602433	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4613504	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4621368	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4624601	0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs4857319	0.83[EUR][1000 genomes]
rs4857320	0.83[EUR][1000 genomes]
rs4857321	0.83[EUR][1000 genomes]
rs4857322	0.83[EUR][1000 genomes]
rs4857326	0.92[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4857331	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4857333	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4857354	1.00[YRI][hapmap]
rs5000372	0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap]
rs5000373	1.00[YRI][hapmap]
rs5023173	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs57869805	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58401463	0.82[EUR][1000 genomes]
rs61672522	0.83[EUR][1000 genomes]
rs62267765	0.84[ASN][1000 genomes]
rs6439634	0.92[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.83[EUR][1000 genomes]
rs6439635	0.83[EUR][1000 genomes]
rs6439636	0.92[CEU][hapmap];0.87[CHB][hapmap];0.91[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.96[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap]
rs6439643	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6439653	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6439722	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs66496940	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs67055113	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs67479571	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs67662218	0.82[EUR][1000 genomes]
rs6766681	0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap]
rs6771800	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6775533	0.83[EUR][1000 genomes]
rs6783141	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6786563	0.83[EUR][1000 genomes]
rs6793032	0.83[EUR][1000 genomes]
rs6796174	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6796474	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6798026	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6801837	0.83[EUR][1000 genomes]
rs6804026	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6805480	0.83[EUR][1000 genomes]
rs7611304	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7615262	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7622476	0.83[EUR][1000 genomes]
rs7622669	0.83[EUR][1000 genomes]
rs7623031	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap]
rs7629410	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7633825	0.83[EUR][1000 genomes]
rs7633931	0.83[EUR][1000 genomes]
rs7637018	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7644015	0.83[EUR][1000 genomes]
rs7644016	0.83[EUR][1000 genomes]
rs7644287	0.92[CEU][hapmap];0.83[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs7649734	0.83[EUR][1000 genomes]
rs9289526	0.83[EUR][1000 genomes]
rs9289532	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9289547	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9289548	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9289549	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9289550	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9809233	0.92[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap]
rs9809399	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9810324	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9811554	0.84[ASN][1000 genomes]
rs9814466	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9819187	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9819661	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9819805	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9823970	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9823977	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9825274	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9825830	0.83[EUR][1000 genomes]
rs9826833	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9826872	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9830822	0.84[ASN][1000 genomes]
rs9836845	0.83[EUR][1000 genomes]
rs9837490	0.83[EUR][1000 genomes]
rs9838194	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9843054	0.83[EUR][1000 genomes]
rs9848032	0.84[ASN][1000 genomes]
rs9848199	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9848264	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs9851509	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs9854467	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9855162	0.82[EUR][1000 genomes]
rs9857107	0.82[EUR][1000 genomes]
rs9860633	0.83[EUR][1000 genomes]
rs9860699	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9860882	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9861044	0.83[EUR][1000 genomes]
rs9861160	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9865124	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9877417	0.83[EUR][1000 genomes]
rs9880245	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9881543	0.92[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.83[EUR][1000 genomes]
rs9883962	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:29 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877207	chr3:97708955-97899294	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv869347	chr3:97742604-98051633	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv877209	chr3:97806616-98049409	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv963576	chr3:97825434-98041343	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv1004820	chr3:97852875-98169488	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
6	nsv834773	chr3:97855362-98043888	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	esv3416921	chr3:97859875-97902358	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1000834	chr3:97859880-98095473	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
9	nsv877210	chr3:97866177-97992964	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
10	esv2566065	chr3:97873442-97931531	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	esv5601	chr3:97874279-97931369	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	esv3428925	chr3:97874391-97931104	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
13	esv3326206	chr3:97874447-97931276	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
14	nsv513059	chr3:97875075-97932953	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
15	esv3430659	chr3:97878961-97933659	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
16	esv3504753	chr3:97881256-97920688	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
17	esv3504754	chr3:97881256-97920688	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
18	esv3520819	chr3:97882130-97921660	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a
19	esv3520820	chr3:97882130-97921660	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a
20	esv1792159	chr3:97887491-97919363	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
21	esv1810766	chr3:97887491-97919363	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
22	esv1823394	chr3:97887491-97919363	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
23	esv1824074	chr3:97887491-97919363	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
24	esv1836052	chr3:97887491-97919363	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
25	esv1836766	chr3:97887491-97919363	ZNF genes & repeats Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
26	esv1850194	chr3:97887491-97919363	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
27	esv1850328	chr3:97887491-97919363	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
28	nsv442868	chr3:97887491-97919363	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
29	esv19096	chr3:97891026-97913396	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9879764	FAM55C	cis	parietal	SCAN
rs9879764	OR5K4	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:97899200-97899400	Active TSS	Monocytes-CD14+_RO01746	blood

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