Variant report

Variant	rs946820
Chromosome Location	chrX:109387928-109387929
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs11152597	1.00[JPT][hapmap]
rs11797230	1.00[JPT][hapmap]
rs1418393	1.00[JPT][hapmap]
rs1623948	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap]
rs1770343	1.00[ASW][hapmap];0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs1774690	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap]
rs1774691	1.00[ASW][hapmap];0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs2791640	0.81[ASW][hapmap];0.93[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs2795991	0.93[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.95[TSI][hapmap]
rs2795992	0.93[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.95[TSI][hapmap]
rs2795993	0.81[ASW][hapmap];0.93[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs2795994	0.93[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs2795995	0.87[CHB][hapmap]
rs2881449	1.00[JPT][hapmap]
rs4081383	1.00[JPT][hapmap]
rs4421522	0.86[CEU][hapmap];0.87[CHB][hapmap];0.83[CHD][hapmap];0.89[TSI][hapmap]
rs4628434	1.00[JPT][hapmap]
rs4893450	0.86[CEU][hapmap];0.87[CHB][hapmap]
rs5942620	1.00[JPT][hapmap]
rs5942626	0.87[CHB][hapmap];0.83[CHD][hapmap]
rs5942628	0.86[CEU][hapmap];0.87[CHB][hapmap];0.83[CHD][hapmap];0.89[TSI][hapmap]
rs5942629	0.86[CEU][hapmap];0.87[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap]
rs5942883	1.00[JPT][hapmap]
rs5942886	1.00[JPT][hapmap]
rs5942887	1.00[JPT][hapmap]
rs5942890	0.86[CEU][hapmap];0.87[CHB][hapmap];0.83[CHD][hapmap];0.89[TSI][hapmap]
rs5942896	0.86[CEU][hapmap];0.87[CHB][hapmap];0.83[CHD][hapmap];0.89[TSI][hapmap]
rs5942897	0.86[CEU][hapmap];0.87[CHB][hapmap];0.83[CHD][hapmap];0.88[TSI][hapmap]
rs5942899	0.87[CHB][hapmap]
rs5985271	0.81[ASW][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.92[MKK][hapmap]
rs5985439	1.00[JPT][hapmap]
rs5985440	1.00[JPT][hapmap]
rs5985442	1.00[JPT][hapmap]
rs5985446	0.86[CEU][hapmap];0.87[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap]
rs946821	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap]
rs946822	0.81[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];1.00[TSI][hapmap]

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	esv3369563	chrX:109079631-109573656	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	142 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:109334000-109402600	Weak transcription	Primary B cells from cord blood	blood
2	chrX:109352400-109402400	Weak transcription	Primary B cells from peripheral blood	blood
3	chrX:109352400-109414000	Weak transcription	Dnd41	blood
4	chrX:109353200-109389000	Weak transcription	Hela-S3	cervix
5	chrX:109363600-109392600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chrX:109367200-109396200	Weak transcription	Duodenum Mucosa	Duodenum
7	chrX:109367800-109389200	Weak transcription	Fetal Intestine Large	intestine
8	chrX:109369600-109388200	Weak transcription	Fetal Intestine Small	intestine
9	chrX:109373600-109388600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chrX:109374000-109389200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chrX:109374400-109389400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chrX:109375600-109389400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chrX:109376800-109392000	Weak transcription	Primary T cells from cord blood	blood
14	chrX:109377400-109388800	Weak transcription	A549	lung
15	chrX:109377600-109403400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chrX:109378000-109392400	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chrX:109382600-109389200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chrX:109382800-109388000	Weak transcription	Placenta	Placenta
19	chrX:109382800-109392600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chrX:109383400-109388800	Weak transcription	H9 Cell Line	embryonic stem cell
21	chrX:109384200-109389800	Enhancers	Primary neutrophils fromperipheralblood	blood
22	chrX:109384800-109389600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chrX:109384800-109390400	Enhancers	Breast Myoepithelial Primary Cells	Breast
24	chrX:109385000-109388200	Enhancers	NHEK	skin
25	chrX:109385200-109390000	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chrX:109385600-109388600	Weak transcription	Brain Anterior Caudate	brain
27	chrX:109385600-109388600	Weak transcription	K562	blood
28	chrX:109385600-109389200	Weak transcription	Muscle Satellite Cultured Cells	--
29	chrX:109385600-109389800	Enhancers	Skeletal Muscle Female	skeletal muscle
30	chrX:109385800-109390400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chrX:109385800-109406800	Weak transcription	Gastric	stomach
32	chrX:109386200-109388200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chrX:109386200-109389400	Weak transcription	Right Atrium	heart
34	chrX:109386400-109388800	Weak transcription	Primary T cells fromperipheralblood	blood
35	chrX:109386400-109389000	Weak transcription	Spleen	Spleen
36	chrX:109386400-109404000	Weak transcription	Right Ventricle	heart
37	chrX:109386600-109388400	Enhancers	Primary monocytes fromperipheralblood	blood
38	chrX:109386800-109388200	Enhancers	Duodenum Smooth Muscle	Duodenum
39	chrX:109387000-109389600	Weak transcription	Ovary	ovary
40	chrX:109387000-109389800	Enhancers	Monocytes-CD14+_RO01746	blood
41	chrX:109387200-109388200	Weak transcription	Lung	lung
42	chrX:109387200-109388600	Weak transcription	HMEC	breast
43	chrX:109387200-109388800	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chrX:109387200-109389400	Weak transcription	Fetal Heart	heart
45	chrX:109387200-109392200	Weak transcription	Fetal Muscle Trunk	muscle
46	chrX:109387400-109388000	Weak transcription	Fetal Muscle Leg	muscle
47	chrX:109387400-109388200	Weak transcription	Psoas Muscle	Psoas
48	chrX:109387400-109389400	Weak transcription	Esophagus	oesophagus
49	chrX:109387400-109389400	Weak transcription	Osteobl	bone
50	chrX:109387400-109389800	Weak transcription	Pancreas	Pancrea

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