Variant report

Variant	rs2987065
Chromosome Location	chr9:15930504-15930505
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 151 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:148)

rs_ID	r²[population]
rs1080484	0.87[ASW][hapmap];0.83[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.85[TSI][hapmap];0.95[YRI][hapmap]
rs1081243	0.86[EUR][1000 genomes]
rs1081244	0.83[EUR][1000 genomes]
rs1081246	0.86[EUR][1000 genomes]
rs1081247	0.86[EUR][1000 genomes]
rs1169469	1.00[CHB][hapmap];0.87[CHD][hapmap];0.83[TSI][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1169470	0.83[EUR][1000 genomes]
rs1169471	1.00[CHB][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1169472	1.00[CHB][hapmap];0.95[TSI][hapmap];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1169474	0.84[EUR][1000 genomes]
rs1169475	1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.89[TSI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1169476	1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.89[TSI][hapmap];0.82[YRI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1169477	1.00[CHB][hapmap];0.94[YRI][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1169481	1.00[CHB][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1169482	0.85[ASN][1000 genomes]
rs1177610	0.85[EUR][1000 genomes]
rs1177611	0.85[EUR][1000 genomes]
rs1184568	1.00[CHB][hapmap];0.87[CHD][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1184913	1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.89[TSI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1185652	0.82[EUR][1000 genomes]
rs1186048	1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.89[TSI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1186387	1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1328281	0.84[EUR][1000 genomes]
rs1328285	1.00[ASW][hapmap];1.00[GIH][hapmap];0.89[LWK][hapmap];0.88[MEX][hapmap];0.96[MKK][hapmap];0.89[TSI][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1328287	0.90[TSI][hapmap];0.83[EUR][1000 genomes]
rs1341733	1.00[CHB][hapmap];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1341739	0.85[TSI][hapmap];0.81[EUR][1000 genomes]
rs1359952	0.86[LWK][hapmap];0.95[YRI][hapmap]
rs1361607	0.81[EUR][1000 genomes]
rs1361608	0.81[EUR][1000 genomes]
rs1536686	0.85[EUR][1000 genomes]
rs1536687	0.83[EUR][1000 genomes]
rs1578556	0.81[EUR][1000 genomes]
rs1578557	0.82[EUR][1000 genomes]
rs1578558	0.85[TSI][hapmap];0.82[EUR][1000 genomes]
rs1582200	0.82[EUR][1000 genomes]
rs16933738	0.92[ASN][1000 genomes]
rs1752777	0.83[EUR][1000 genomes]
rs1773046	0.84[EUR][1000 genomes]
rs1773062	1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.89[TSI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1815697	0.84[EUR][1000 genomes]
rs1891209	1.00[CHB][hapmap];0.90[GIH][hapmap];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1935220	0.81[EUR][1000 genomes]
rs1935221	0.86[TSI][hapmap];0.84[EUR][1000 genomes]
rs1935223	1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1954220	0.84[EUR][1000 genomes]
rs2094520	1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.86[LWK][hapmap];0.86[MEX][hapmap];0.81[MKK][hapmap];0.82[YRI][hapmap];0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2105313	0.84[EUR][1000 genomes]
rs2105314	0.84[EUR][1000 genomes]
rs2149230	0.82[EUR][1000 genomes]
rs2182934	1.00[CHB][hapmap];0.80[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2182935	1.00[CHB][hapmap];0.95[YRI][hapmap];0.80[AFR][1000 genomes];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2769714	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2769716	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794624	0.84[EUR][1000 genomes]
rs2794625	0.85[TSI][hapmap];0.84[EUR][1000 genomes]
rs2794626	0.84[EUR][1000 genomes]
rs2794627	0.84[EUR][1000 genomes]
rs2794628	0.84[EUR][1000 genomes]
rs2794629	0.84[EUR][1000 genomes]
rs2794631	0.83[EUR][1000 genomes]
rs2794633	0.80[TSI][hapmap]
rs2794638	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2987009	0.90[YRI][hapmap]
rs2987010	0.90[YRI][hapmap]
rs2987011	0.90[YRI][hapmap]
rs2987012	0.90[YRI][hapmap]
rs2987013	0.81[YRI][hapmap]
rs2987037	0.93[ASN][1000 genomes]
rs2987040	0.93[ASN][1000 genomes]
rs2987043	0.93[ASN][1000 genomes]
rs2987044	0.93[ASN][1000 genomes]
rs2987045	0.84[EUR][1000 genomes]
rs2987046	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2987053	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2987054	1.00[CHB][hapmap];0.82[YRI][hapmap];0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2987057	1.00[CHB][hapmap];0.82[YRI][hapmap];0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2987060	0.82[EUR][1000 genomes]
rs2987061	0.82[EUR][1000 genomes]
rs2987062	0.83[CEU][hapmap];0.82[TSI][hapmap];0.86[EUR][1000 genomes]
rs2987063	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2987064	0.83[EUR][1000 genomes]
rs2987066	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2987073	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2987076	1.00[CHB][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2987077	0.85[ASN][1000 genomes]
rs2995024	0.85[EUR][1000 genomes]
rs2995025	0.83[EUR][1000 genomes]
rs3008666	0.90[YRI][hapmap]
rs3008669	1.00[CHB][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3008680	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3008681	0.95[YRI][hapmap];0.80[AFR][1000 genomes]
rs3008682	1.00[ASW][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3008683	0.91[CEU][hapmap];1.00[CHB][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3008685	0.86[EUR][1000 genomes]
rs3008691	0.80[EUR][1000 genomes]
rs3008692	0.82[EUR][1000 genomes]
rs3008693	0.82[EUR][1000 genomes]
rs3008695	0.82[EUR][1000 genomes]
rs3008700	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3008706	0.85[ASN][1000 genomes]
rs3008708	0.85[ASN][1000 genomes]
rs3008712	0.93[ASN][1000 genomes]
rs3008737	0.93[ASN][1000 genomes]
rs3008748	0.90[YRI][hapmap]
rs3008749	0.85[YRI][hapmap]
rs3008753	0.85[YRI][hapmap]
rs3750402	1.00[ASN][1000 genomes]
rs6474978	0.87[EUR][1000 genomes]
rs6474979	0.86[EUR][1000 genomes]
rs6474996	0.93[ASN][1000 genomes]
rs7028328	0.83[EUR][1000 genomes]
rs7039881	0.82[EUR][1000 genomes]
rs7388793	0.81[EUR][1000 genomes]
rs7469281	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs770190	0.88[EUR][1000 genomes]
rs770192	0.84[EUR][1000 genomes]
rs770193	0.95[TSI][hapmap];0.87[EUR][1000 genomes]
rs770194	0.90[TSI][hapmap];0.84[EUR][1000 genomes]
rs770195	0.83[EUR][1000 genomes]
rs770197	0.87[EUR][1000 genomes]
rs770198	0.85[EUR][1000 genomes]
rs770199	0.85[EUR][1000 genomes]
rs770200	0.86[EUR][1000 genomes]
rs770201	0.87[EUR][1000 genomes]
rs770202	0.87[EUR][1000 genomes]
rs770203	1.00[CHB][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs770204	0.90[TSI][hapmap];0.87[EUR][1000 genomes]
rs770205	0.90[TSI][hapmap];0.87[EUR][1000 genomes]
rs770206	1.00[CHB][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs770207	0.82[EUR][1000 genomes]
rs770209	1.00[CHB][hapmap]
rs770210	1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs770212	1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs770214	1.00[CHB][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs770216	1.00[CHB][hapmap]
rs770217	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs770218	1.00[CHB][hapmap];0.90[GIH][hapmap];0.84[TSI][hapmap];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7860354	0.81[EUR][1000 genomes]
rs7860463	0.84[EUR][1000 genomes]
rs7860856	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7861105	0.82[EUR][1000 genomes]
rs809493	0.83[EUR][1000 genomes]
rs9406546	0.84[EUR][1000 genomes]
rs9407664	0.81[EUR][1000 genomes]
rs9407665	0.83[EUR][1000 genomes]
rs9407668	0.84[EUR][1000 genomes]
rs961116	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	esv2753625	chr9:15914055-15980320	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer	lncRNA	n/a	inside rSNPs	diseases
3	nsv892637	chr9:15926508-16060746	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2987065	HAUS6	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15918200-15930800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr9:15920000-15936000	Weak transcription	Ovary	ovary
3	chr9:15922800-15930800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr9:15922800-15931600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr9:15927400-15934800	Weak transcription	HSMM	muscle
6	chr9:15928000-15932600	Weak transcription	NHDF-Ad	bronchial
7	chr9:15930400-15938600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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