Variant report

Variant	rs9835166
Chromosome Location	chr3:134166224-134166225
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:134049310..134051236-chr3:134163425..134166310,2	MCF-7	breast:
2	chr3:134164113..134166557-chr3:134169956..134171871,3	MCF-7	breast:
3	chr3:134026798..134028420-chr3:134164621..134166613,2	MCF-7	breast:
4	chr3:134090911..134094282-chr3:134164526..134168803,5	MCF-7	breast:
5	chr3:134099796..134102271-chr3:134165390..134167707,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114019	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 12 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11916983	0.86[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11917131	0.91[ASN][1000 genomes]
rs11917156	0.86[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11924801	0.85[CHB][hapmap];0.82[JPT][hapmap];0.91[ASN][1000 genomes]
rs12695612	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695613	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13059980	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs13066038	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs13067502	0.85[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs13067509	0.85[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs13074369	0.91[ASN][1000 genomes]
rs13075432	0.89[ASN][1000 genomes]
rs13097818	0.86[CHB][hapmap]
rs1366067	0.82[AMR][1000 genomes]
rs2241557	0.86[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs34102849	0.91[ASN][1000 genomes]
rs35088484	0.91[ASN][1000 genomes]
rs35394720	0.91[ASN][1000 genomes]
rs35922016	0.91[ASN][1000 genomes]
rs35944310	0.91[ASN][1000 genomes]
rs4312629	0.86[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4552325	0.86[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4596118	0.91[ASN][1000 genomes]
rs4605513	0.91[ASN][1000 genomes]
rs4607082	0.91[ASN][1000 genomes]
rs6771701	0.91[ASN][1000 genomes]
rs6791295	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6796705	0.86[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7623580	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7637740	0.86[CHB][hapmap]
rs7644093	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7644251	0.86[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7647128	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs9789971	0.84[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9789972	0.86[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9809989	0.86[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9822766	0.91[ASN][1000 genomes]
rs9826589	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9829477	0.86[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9829637	0.86[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9839295	0.85[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9848223	0.88[ASN][1000 genomes]
rs9851770	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9857134	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877510	chr3:134126150-134400448	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:12)

SNP	Gene	Cis/trans	Tissue	Source
rs9835166	ANAPC13	cis	lesional skin	skin_eQTL
rs9835166	ANAPC13	cis	lung	GTEx
rs9835166	ANAPC13	cis	parietal	SCAN
rs9835166	CEP63	Cis_1M	lymphoblastoid	RTeQTL
rs9835166	KY	cis	cerebellum	SCAN
rs9835166	TXNDC6	cis	cerebellum	SCAN
rs9835166	ANAPC13	cis	Nerve Tibial	GTEx
rs9835166	ANAPC13	cis	Muscle Skeletal	GTEx
rs9835166	ANAPC13	cis	cerebellum	SCAN
rs9835166	ANAPC13	cis	Artery Tibial	GTEx
rs9835166	ANAPC13	cis	Esophagus Muscularis	GTEx
rs9835166	ANAPC13	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134161200-134166600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:134163000-134166600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr3:134163800-134166800	Enhancers	NHDF-Ad	bronchial
4	chr3:134164000-134166600	Enhancers	Muscle Satellite Cultured Cells	--
5	chr3:134164200-134166400	Enhancers	NH-A	brain
6	chr3:134164200-134166600	Enhancers	HUVEC	blood vessel
7	chr3:134164200-134166600	Enhancers	NHLF	lung
8	chr3:134164200-134167000	Enhancers	Adipose Nuclei	Adipose
9	chr3:134164200-134167200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr3:134164400-134166600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:134164400-134166600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr3:134164400-134166600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr3:134164400-134166600	Enhancers	HSMM	muscle
14	chr3:134164400-134166800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr3:134164400-134166800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr3:134164400-134166800	Enhancers	Skeletal Muscle Male	skeletal muscle
17	chr3:134164400-134166800	Enhancers	HMEC	breast
18	chr3:134164400-134166800	Enhancers	HSMMtube	muscle
19	chr3:134164400-134167200	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr3:134164400-134168800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr3:134164600-134166800	Enhancers	Placenta	Placenta
22	chr3:134164600-134166800	Enhancers	Right Atrium	heart
23	chr3:134164600-134167000	Enhancers	Left Ventricle	heart
24	chr3:134164600-134167400	Weak transcription	Brain Substantia Nigra	brain
25	chr3:134164600-134169000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr3:134164800-134166400	Weak transcription	Stomach Mucosa	stomach
27	chr3:134164800-134166800	Enhancers	Osteobl	bone
28	chr3:134164800-134167200	Enhancers	Right Ventricle	heart
29	chr3:134165000-134167400	Weak transcription	Brain Cingulate Gyrus	brain
30	chr3:134165200-134166800	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr3:134165200-134168400	Weak transcription	Pancreas	Pancrea
32	chr3:134165400-134166400	Enhancers	Aorta	Aorta
33	chr3:134165400-134167000	Enhancers	Lung	lung
34	chr3:134165600-134167000	Weak transcription	Fetal Kidney	kidney
35	chr3:134165600-134167000	Enhancers	Fetal Muscle Trunk	muscle
36	chr3:134165600-134167000	Enhancers	Fetal Muscle Leg	muscle
37	chr3:134165600-134167000	Enhancers	Gastric	stomach
38	chr3:134165800-134166600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr3:134165800-134167400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr3:134166000-134167400	Weak transcription	Fetal Lung	lung
41	chr3:134166000-134168600	Weak transcription	Fetal Stomach	stomach
42	chr3:134166000-134181800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr3:134166200-134168000	Weak transcription	Brain Hippocampus Middle	brain
44	chr3:134166200-134168000	Weak transcription	NHEK	skin
45	chr3:134166200-134168200	Weak transcription	Spleen	Spleen

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