Variant report

Variant	rs9401016
Chromosome Location	chr6:117922581-117922582
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:117793237..117795421-chr6:117921581..117923205,2	MCF-7	breast:
2	chr6:117920370..117923452-chr6:117923960..117927734,3	MCF-7	breast:
3	chr6:117919537..117925760-chr6:117993513..117997816,10	K562	blood:
4	chr6:117798788..117807313-chr6:117921918..117925735,11	MCF-7	breast:
5	chr6:117803575..117805462-chr6:117921337..117926516,4	K562	blood:
6	chr6:117778227..117782608-chr6:117922454..117926248,4	MCF-7	breast:
7	chr6:117803211..117805462-chr6:117921337..117926538,8	K562	blood:
8	chr6:117919854..117927630-chr6:117992313..117999313,9	K562	blood:
9	chr6:117802223..117804604-chr6:117922456..117924196,2	MCF-7	breast:
10	chr6:117921339..117924676-chr6:117954310..117957194,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000207461	Chromatin interaction
ENSG00000218233	Chromatin interaction
ENSG00000153989	Chromatin interaction
ENSG00000164465	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs11153678	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153686	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11153687	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11153689	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12665677	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1472591	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17079404	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs210616	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs210618	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs210621	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs210627	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs210628	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs210629	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs210631	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs210632	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs210634	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs210636	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs210638	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs210643	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28650886	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs389663	0.82[CEU][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs4443534	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56314470	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs60541940	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62430987	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62430988	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62430989	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62431047	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62431051	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62431052	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9320611	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9372483	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9374675	0.91[EUR][1000 genomes]
rs9387489	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9387490	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9387496	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9387497	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9401015	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9401017	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9689424	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9689805	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9689889	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][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	nsv532050	chr6:117528154-118203005	ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:117871600-117922600	Weak transcription	Stomach Mucosa	stomach
2	chr6:117904400-117922800	Weak transcription	Gastric	stomach
3	chr6:117919400-117922800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:117920000-117924000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr6:117920400-117922800	Active TSS	Fetal Brain Male	brain
6	chr6:117920400-117924200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:117920400-117924200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:117920400-117924200	Active TSS	NHLF	lung
9	chr6:117920600-117922600	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr6:117920600-117922600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
11	chr6:117920600-117922600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
12	chr6:117920600-117922800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
13	chr6:117920600-117924000	Active TSS	Rectal Mucosa Donor 29	rectum
14	chr6:117920600-117924200	Active TSS	HSMMtube	muscle
15	chr6:117920600-117924200	Active TSS	NHDF-Ad	bronchial
16	chr6:117920600-117924400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr6:117920800-117922800	Flanking Active TSS	HUVEC	blood vessel
18	chr6:117920800-117924200	Active TSS	A549	lung
19	chr6:117920800-117924200	Active TSS	GM12878-XiMat	blood
20	chr6:117921000-117922800	Flanking Active TSS	Dnd41	blood
21	chr6:117921200-117922600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr6:117921200-117923000	Flanking Active TSS	Primary T cells from cord blood	blood
23	chr6:117921200-117924200	Active TSS	Hela-S3	cervix
24	chr6:117921400-117922800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr6:117921400-117923200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr6:117921400-117923400	Active TSS	Right Atrium	heart
27	chr6:117921400-117924000	Active TSS	NH-A	brain
28	chr6:117921400-117924000	Active TSS	Osteobl	bone
29	chr6:117921400-117924200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr6:117921400-117924200	Active TSS	Brain Inferior Temporal Lobe	brain
31	chr6:117921400-117924400	Active TSS	Ovary	ovary
32	chr6:117921400-117924400	Active TSS	Rectal Smooth Muscle	rectum
33	chr6:117921400-117924600	Active TSS	ES-I3 Cell Line	embryonic stem cell
34	chr6:117921400-117924600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr6:117921400-117924600	Active TSS	HUES48 Cell Line	embryonic stem cell
36	chr6:117921600-117922800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr6:117921600-117923000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr6:117921600-117923200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
39	chr6:117921600-117924000	Active TSS	Muscle Satellite Cultured Cells	--
40	chr6:117921600-117924000	Active TSS	HMEC	breast
41	chr6:117921600-117924000	Active TSS	K562	blood
42	chr6:117921600-117924200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr6:117921600-117924600	Active TSS	HUES64 Cell Line	embryonic stem cell
44	chr6:117921600-117924600	Active TSS	Primary hematopoietic stem cells short term culture	blood
45	chr6:117921800-117922600	Weak transcription	Colonic Mucosa	Colon
46	chr6:117921800-117922600	Weak transcription	Left Ventricle	heart
47	chr6:117921800-117922600	Weak transcription	Small Intestine	intestine
48	chr6:117921800-117922800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr6:117921800-117922800	Enhancers	Primary neutrophils fromperipheralblood	blood
50	chr6:117921800-117922800	Weak transcription	Esophagus	oesophagus

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