Variant report

Variant	rs9401015
Chromosome Location	chr6:117922367-117922368
allele	A/T
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 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	chr6:117803211..117805462-chr6:117921337..117926538,8	K562	blood:
7	chr6:117919854..117927630-chr6:117992313..117999313,9	K562	blood:
8	chr6:117921339..117924676-chr6:117954310..117957194,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000153989	Chromatin interaction
ENSG00000164465	Chromatin interaction
ENSG00000218233	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	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	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs210616	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	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs210627	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs210628	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	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs210632	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs210634	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	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs210643	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	0.85[ASN][1000 genomes]
rs4443534	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[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]
rs9401016	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	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:124 , 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	chr6:117894800-117922400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr6:117904400-117922800	Weak transcription	Gastric	stomach
4	chr6:117916600-117922400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr6:117919400-117922400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr6:117919400-117922800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:117920000-117922400	Weak transcription	Fetal Muscle Trunk	muscle
8	chr6:117920000-117922400	Weak transcription	Placenta	Placenta
9	chr6:117920000-117924000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr6:117920400-117922800	Active TSS	Fetal Brain Male	brain
11	chr6:117920400-117924200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr6:117920400-117924200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr6:117920400-117924200	Active TSS	NHLF	lung
14	chr6:117920600-117922600	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr6:117920600-117922600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
16	chr6:117920600-117922600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
17	chr6:117920600-117922800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
18	chr6:117920600-117924000	Active TSS	Rectal Mucosa Donor 29	rectum
19	chr6:117920600-117924200	Active TSS	HSMMtube	muscle
20	chr6:117920600-117924200	Active TSS	NHDF-Ad	bronchial
21	chr6:117920600-117924400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr6:117920800-117922400	Active TSS	Duodenum Smooth Muscle	Duodenum
23	chr6:117920800-117922800	Flanking Active TSS	HUVEC	blood vessel
24	chr6:117920800-117924200	Active TSS	A549	lung
25	chr6:117920800-117924200	Active TSS	GM12878-XiMat	blood
26	chr6:117921000-117922800	Flanking Active TSS	Dnd41	blood
27	chr6:117921200-117922400	Enhancers	Primary B cells from peripheral blood	blood
28	chr6:117921200-117922600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr6:117921200-117923000	Flanking Active TSS	Primary T cells from cord blood	blood
30	chr6:117921200-117924200	Active TSS	Hela-S3	cervix
31	chr6:117921400-117922400	Enhancers	Placenta Amnion	Placenta Amnion
32	chr6:117921400-117922800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr6:117921400-117923200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr6:117921400-117923400	Active TSS	Right Atrium	heart
35	chr6:117921400-117924000	Active TSS	NH-A	brain
36	chr6:117921400-117924000	Active TSS	Osteobl	bone
37	chr6:117921400-117924200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr6:117921400-117924200	Active TSS	Brain Inferior Temporal Lobe	brain
39	chr6:117921400-117924400	Active TSS	Ovary	ovary
40	chr6:117921400-117924400	Active TSS	Rectal Smooth Muscle	rectum
41	chr6:117921400-117924600	Active TSS	ES-I3 Cell Line	embryonic stem cell
42	chr6:117921400-117924600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr6:117921400-117924600	Active TSS	HUES48 Cell Line	embryonic stem cell
44	chr6:117921600-117922400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
45	chr6:117921600-117922800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr6:117921600-117923000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr6:117921600-117923200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
48	chr6:117921600-117924000	Active TSS	Muscle Satellite Cultured Cells	--
49	chr6:117921600-117924000	Active TSS	HMEC	breast
50	chr6:117921600-117924000	Active TSS	K562	blood

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