Variant report

Variant	rs4394213
Chromosome Location	chr6:37906298-37906299
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:37896273..37898788-chr6:37905875..37907491,2	MCF-7	breast:
2	chr6:37904858..37907835-chr6:37909386..37911345,2	K562	blood:

Variant related genes	Relation type
ENSG00000156639	Chromatin interaction

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs11759458	1.00[JPT][hapmap]
rs11964613	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11964671	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11970017	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13198459	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13200310	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13203867	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13205214	1.00[JPT][hapmap]
rs13207526	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs13210087	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs13210967	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13211881	0.83[EUR][1000 genomes]
rs13217630	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs13219500	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16890185	1.00[JPT][hapmap]
rs16890194	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16890301	1.00[CEU][hapmap];0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs16890365	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs2395689	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2453882	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2645096	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2645098	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2645104	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2645115	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2645126	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs28385568	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2842499	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2842506	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2842511	0.89[EUR][1000 genomes]
rs2842512	0.85[EUR][1000 genomes]
rs2842513	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2842514	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2842516	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2842524	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs33997846	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34054102	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34123707	0.93[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs34449592	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34618835	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34634043	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34754573	0.93[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs35051126	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35202194	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs35248825	0.83[EUR][1000 genomes]
rs35330991	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35379375	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35465740	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35575717	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35597126	0.81[AFR][1000 genomes]
rs35653300	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35815938	0.81[AFR][1000 genomes]
rs35953900	0.87[EUR][1000 genomes]
rs35955196	0.85[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs36069529	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4711518	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55943813	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs56678832	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6458037	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs6908106	1.00[JPT][hapmap]
rs6908761	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs6910715	0.82[JPT][hapmap]
rs6910837	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs6911481	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap]
rs6912250	0.83[EUR][1000 genomes]
rs6916057	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs6916535	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6917208	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs6917736	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6918802	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs6919884	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6923132	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6923254	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6923665	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs6925563	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6936260	0.82[JPT][hapmap]
rs6940491	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs71569395	0.87[EUR][1000 genomes]
rs71569397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs71569399	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs71569402	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7740636	0.81[AFR][1000 genomes]
rs7747538	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7750445	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs7760770	0.83[EUR][1000 genomes]
rs7762052	0.82[JPT][hapmap]
rs7776025	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296236	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1017051	chr6:37789341-38084719	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv538203	chr6:37789341-38084719	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1018711	chr6:37813397-37981590	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1020625	chr6:37833591-38155622	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37873400-37929200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr6:37880200-37930000	Weak transcription	Thymus	Thymus
3	chr6:37884800-37917000	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr6:37887600-37933200	Weak transcription	NHDF-Ad	bronchial
5	chr6:37887800-37906600	Weak transcription	NH-A	brain
6	chr6:37889000-37906400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr6:37890800-37910400	Weak transcription	NHEK	skin
8	chr6:37892400-37907200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr6:37892600-37910800	Weak transcription	Primary B cells from cord blood	blood
10	chr6:37892600-37928800	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr6:37893200-37910400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr6:37895200-37906600	Weak transcription	Brain Cingulate Gyrus	brain
13	chr6:37895800-37908400	Weak transcription	Adipose Nuclei	Adipose
14	chr6:37896800-37907400	Weak transcription	Left Ventricle	heart
15	chr6:37896800-37929000	Weak transcription	Esophagus	oesophagus
16	chr6:37897000-37907600	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr6:37897200-37908800	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr6:37897200-37909000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr6:37897200-37909000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr6:37897200-37910600	Weak transcription	A549	lung
21	chr6:37897400-37908000	Weak transcription	Brain Anterior Caudate	brain
22	chr6:37898200-37913800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr6:37898600-37910400	Weak transcription	Fetal Kidney	kidney
24	chr6:37899000-37908000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr6:37899000-37908000	Weak transcription	Brain Substantia Nigra	brain
26	chr6:37899200-37906400	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr6:37899200-37907000	Weak transcription	Fetal Muscle Leg	muscle
28	chr6:37899200-37909000	Weak transcription	Fetal Intestine Large	intestine
29	chr6:37901000-37908800	Weak transcription	Colon Smooth Muscle	Colon
30	chr6:37901000-37915400	Weak transcription	Duodenum Mucosa	Duodenum
31	chr6:37901200-37906600	Weak transcription	Stomach Smooth Muscle	stomach
32	chr6:37901200-37906800	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr6:37901200-37908600	Weak transcription	Liver	Liver
34	chr6:37901400-37908400	Weak transcription	Fetal Lung	lung
35	chr6:37901600-37908000	Weak transcription	Rectal Smooth Muscle	rectum
36	chr6:37901600-37909000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr6:37902200-37909200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr6:37902200-37910600	Weak transcription	NHLF	lung
39	chr6:37902200-37913600	Weak transcription	HepG2	liver
40	chr6:37902600-37906600	Weak transcription	Right Ventricle	heart
41	chr6:37903400-37906600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
42	chr6:37903400-37906800	Enhancers	Primary T cells from cord blood	blood
43	chr6:37903400-37911400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr6:37903600-37908800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr6:37903800-37907200	Enhancers	Primary hematopoietic stem cells short term culture	blood
46	chr6:37904800-37907000	Weak transcription	Ovary	ovary
47	chr6:37904800-37920400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
48	chr6:37904800-37920400	Weak transcription	Small Intestine	intestine
49	chr6:37904800-37933400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr6:37905000-37906800	Weak transcription	Monocytes-CD14+_RO01746	blood

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