Variant report

Variant	rs9458076
Chromosome Location	chr6:161416811-161416812
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:161352344..161353198-chr6:161416107..161416981,2	MCF-7	breast:
2	chr6:161412541..161414209-chr6:161416137..161417801,2	MCF-7	breast:
3	chr6:161410042..161415394-chr6:161415769..161420242,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000272841	Chromatin interaction
ENSG00000085511	Chromatin interaction

Extended variants
information (count: 117 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:112)

rs_ID	r²[population]
rs10080366	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11966001	1.00[EUR][1000 genomes]
rs12181932	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12333168	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13437252	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16892148	1.00[AMR][1000 genomes]
rs16892155	1.00[AMR][1000 genomes]
rs16892160	1.00[AMR][1000 genomes]
rs16892171	1.00[AMR][1000 genomes]
rs1822519	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28493041	0.83[EUR][1000 genomes]
rs28542460	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58963158	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6455705	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6901507	1.00[EUR][1000 genomes]
rs6922585	1.00[EUR][1000 genomes]
rs6923091	1.00[TSI][hapmap]
rs6928749	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6930167	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6934713	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6935472	1.00[EUR][1000 genomes]
rs6935813	1.00[EUR][1000 genomes]
rs6936925	1.00[EUR][1000 genomes]
rs6937754	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73015405	1.00[EUR][1000 genomes]
rs73015418	0.83[EUR][1000 genomes]
rs73015443	0.83[EUR][1000 genomes]
rs73015456	0.83[EUR][1000 genomes]
rs73022077	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73022082	1.00[EUR][1000 genomes]
rs73022084	0.86[EUR][1000 genomes]
rs73022090	1.00[EUR][1000 genomes]
rs73022096	1.00[EUR][1000 genomes]
rs73023854	0.83[EUR][1000 genomes]
rs73023856	0.83[EUR][1000 genomes]
rs73023871	1.00[EUR][1000 genomes]
rs73024033	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73024041	1.00[EUR][1000 genomes]
rs73024080	1.00[EUR][1000 genomes]
rs73026055	1.00[EUR][1000 genomes]
rs73026079	1.00[EUR][1000 genomes]
rs7356842	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs7356869	1.00[CEU][hapmap];0.87[LWK][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7754196	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7754687	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7762953	1.00[EUR][1000 genomes]
rs7767689	1.00[AMR][1000 genomes]
rs7767849	1.00[AMR][1000 genomes]
rs7775116	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7775538	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9295133	1.00[EUR][1000 genomes]
rs9295135	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9456606	1.00[EUR][1000 genomes]
rs9456608	1.00[EUR][1000 genomes]
rs9456609	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9456610	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9456611	1.00[CEU][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9456612	1.00[CEU][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9456613	1.00[CEU][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9456614	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9456615	1.00[EUR][1000 genomes]
rs9456616	1.00[EUR][1000 genomes]
rs9456618	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9456621	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9456622	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9456624	1.00[EUR][1000 genomes]
rs9456625	1.00[EUR][1000 genomes]
rs9456626	1.00[EUR][1000 genomes]
rs9456627	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9456628	1.00[EUR][1000 genomes]
rs9456630	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458074	0.82[CEU][hapmap];1.00[EUR][1000 genomes]
rs9458075	1.00[EUR][1000 genomes]
rs9458077	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458079	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458080	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458081	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458082	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458083	1.00[CEU][hapmap]
rs9458084	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458085	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458088	1.00[CEU][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458089	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9458090	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458091	1.00[CEU][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458092	1.00[CEU][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458093	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458094	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458095	1.00[EUR][1000 genomes]
rs9458096	1.00[EUR][1000 genomes]
rs9458097	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458098	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458101	1.00[CEU][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458103	1.00[CEU][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458104	1.00[CEU][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458105	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458111	0.86[EUR][1000 genomes]
rs9458112	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9458113	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9458115	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458116	1.00[EUR][1000 genomes]
rs9458118	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9458119	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9458120	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9458123	1.00[EUR][1000 genomes]
rs9458124	1.00[EUR][1000 genomes]
rs9458125	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458127	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458131	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458133	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458134	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9986548	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422347	chr6:161211171-161442377	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1030045	chr6:161359075-161562255	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv886817	chr6:161371621-161846654	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	esv3381361	chr6:161373617-161864101	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv1023982	chr6:161382188-161549831	Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161411800-161417800	Active TSS	GM12878-XiMat	blood
2	chr6:161413800-161432000	Weak transcription	Aorta	Aorta
3	chr6:161413800-161433000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:161414000-161417200	Weak transcription	Brain Substantia Nigra	brain
5	chr6:161414000-161422400	Weak transcription	Fetal Muscle Leg	muscle
6	chr6:161414000-161430800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:161414000-161432000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr6:161414200-161417000	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr6:161414200-161417000	Weak transcription	Brain Angular Gyrus	brain
10	chr6:161414200-161417200	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr6:161414200-161417200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:161414200-161417400	Weak transcription	Fetal Brain Female	brain
13	chr6:161414200-161417600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr6:161414200-161417800	Enhancers	Primary T helper cells fromperipheralblood	blood
15	chr6:161414200-161418000	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr6:161414200-161418000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
17	chr6:161414200-161419000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
18	chr6:161414200-161420400	Weak transcription	Thymus	Thymus
19	chr6:161414200-161421400	Weak transcription	Brain Anterior Caudate	brain
20	chr6:161414200-161422400	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr6:161414200-161422400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr6:161414200-161422400	Weak transcription	A549	lung
23	chr6:161414200-161422600	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr6:161414200-161422600	Weak transcription	Fetal Kidney	kidney
25	chr6:161414200-161422600	Weak transcription	Stomach Mucosa	stomach
26	chr6:161414200-161431600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr6:161414200-161431600	Weak transcription	Rectal Smooth Muscle	rectum
28	chr6:161414200-161458200	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr6:161414400-161417000	Weak transcription	NH-A	brain
30	chr6:161414400-161417000	Weak transcription	NHDF-Ad	bronchial
31	chr6:161414400-161422400	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr6:161414400-161422400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
33	chr6:161414400-161469600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr6:161414600-161417400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr6:161414600-161422600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr6:161414600-161422800	Weak transcription	Fetal Heart	heart
37	chr6:161414600-161432800	Weak transcription	Fetal Stomach	stomach
38	chr6:161414600-161442600	Weak transcription	Primary B cells from cord blood	blood
39	chr6:161414600-161457400	Weak transcription	Primary hematopoietic stem cells	blood
40	chr6:161414800-161417200	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr6:161414800-161417400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr6:161414800-161417600	Weak transcription	Colon Smooth Muscle	Colon
43	chr6:161414800-161419000	Enhancers	Primary T helper cells PMA-I stimulated	--
44	chr6:161414800-161419000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
45	chr6:161414800-161419600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr6:161414800-161419800	Weak transcription	Fetal Lung	lung
47	chr6:161414800-161420000	Weak transcription	Primary T cells from cord blood	blood
48	chr6:161414800-161420600	Weak transcription	Liver	Liver
49	chr6:161414800-161422400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr6:161414800-161422600	Weak transcription	Hela-S3	cervix

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