Variant report

Variant	rs17067443
Chromosome Location	chr6:107062187-107062188
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:107054582..107058498-chr6:107059878..107063321,3	K562	blood:
2	chr6:107059791..107062552-chr6:107074929..107076473,2	K562	blood:
3	chr6:107061851..107064712-chr6:107064775..107067143,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000200295	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10499046	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12523666	0.92[CHB][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12523769	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12524955	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12524961	1.00[CHB][hapmap];0.84[JPT][hapmap];0.95[ASN][1000 genomes]
rs12525004	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12525311	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12525436	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12525583	0.94[ASN][1000 genomes]
rs12526024	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12527773	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs12528136	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12528406	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12529961	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12530093	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12663120	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs1676030	0.87[CEU][hapmap]
rs17067217	0.92[CHB][hapmap];0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs17067219	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs17067226	0.92[CHB][hapmap];0.85[ASN][1000 genomes]
rs17067245	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs17067371	1.00[CHB][hapmap];0.84[JPT][hapmap];0.96[ASN][1000 genomes]
rs17067393	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17067395	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17067428	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17067432	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17067435	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17067445	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17067469	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs17067613	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs17067614	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs17495248	0.86[CEU][hapmap]
rs17495512	0.88[CEU][hapmap]
rs17495623	0.88[CEU][hapmap]
rs17495678	0.88[CEU][hapmap]
rs17495742	0.86[CEU][hapmap]
rs1979347	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2792467	0.81[ASN][1000 genomes]
rs3761800	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs3804339	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs4363071	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs4946766	0.96[ASN][1000 genomes]
rs56664576	1.00[ASN][1000 genomes]
rs56725742	1.00[ASN][1000 genomes]
rs58482231	0.96[ASN][1000 genomes]
rs58620450	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59480706	1.00[ASN][1000 genomes]
rs59962977	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6924412	0.92[EUR][1000 genomes]
rs6938201	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs72943025	0.86[AFR][1000 genomes]
rs72945007	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72945013	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72945015	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72945026	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72945035	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72945036	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72945040	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72945046	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72945047	1.00[AFR][1000 genomes]
rs72945053	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72945056	1.00[AFR][1000 genomes]
rs72945059	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72945067	0.83[AFR][1000 genomes]
rs72945068	0.83[AFR][1000 genomes]
rs72945071	0.83[AFR][1000 genomes]
rs72945072	0.83[AFR][1000 genomes]
rs72945075	0.83[AFR][1000 genomes]
rs72945079	0.83[AFR][1000 genomes]
rs72945081	0.83[AFR][1000 genomes]
rs72945093	0.83[AFR][1000 genomes]
rs72945095	0.83[AFR][1000 genomes]
rs72945097	0.83[AFR][1000 genomes]
rs72945098	0.83[AFR][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	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17067443	RTN4IP1	cis	multi-tissue	Pritchard

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106996400-107074000	Weak transcription	Fetal Kidney	kidney
2	chr6:107010200-107064600	Weak transcription	A549	lung
3	chr6:107018400-107066400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr6:107018400-107076400	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr6:107018800-107076200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr6:107019000-107076200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr6:107019800-107076400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr6:107022000-107076400	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr6:107023400-107068800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr6:107023400-107076600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr6:107030800-107076800	Weak transcription	Small Intestine	intestine
12	chr6:107031200-107077000	Weak transcription	Spleen	Spleen
13	chr6:107031400-107065200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr6:107031400-107076200	Weak transcription	Fetal Muscle Trunk	muscle
15	chr6:107031400-107076600	Weak transcription	Brain Angular Gyrus	brain
16	chr6:107031800-107076600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr6:107033000-107076600	Weak transcription	Aorta	Aorta
18	chr6:107035400-107076600	Weak transcription	Right Ventricle	heart
19	chr6:107035800-107070400	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr6:107035800-107070400	Weak transcription	Fetal Lung	lung
21	chr6:107039200-107076400	Weak transcription	Brain Germinal Matrix	brain
22	chr6:107039200-107076600	Weak transcription	Fetal Muscle Leg	muscle
23	chr6:107039600-107076600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr6:107039600-107076600	Weak transcription	Fetal Stomach	stomach
25	chr6:107039800-107076200	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr6:107039800-107076400	Weak transcription	Stomach Smooth Muscle	stomach
27	chr6:107040000-107062800	Weak transcription	NHLF	lung
28	chr6:107040000-107065200	Weak transcription	HepG2	liver
29	chr6:107040000-107066000	Weak transcription	Brain Anterior Caudate	brain
30	chr6:107040000-107068400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr6:107040000-107076600	Weak transcription	Brain Cingulate Gyrus	brain
32	chr6:107040000-107076600	Weak transcription	Fetal Intestine Large	intestine
33	chr6:107040200-107064000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr6:107040200-107064600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr6:107040200-107064800	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr6:107040200-107065000	Weak transcription	K562	blood
37	chr6:107040200-107068400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr6:107040200-107070600	Weak transcription	Dnd41	blood
39	chr6:107040200-107076200	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr6:107040200-107076400	Weak transcription	Brain Substantia Nigra	brain
41	chr6:107040200-107076600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr6:107040200-107076600	Weak transcription	Ovary	ovary
43	chr6:107040400-107066400	Weak transcription	Liver	Liver
44	chr6:107040400-107066600	Weak transcription	HSMM	muscle
45	chr6:107040400-107070200	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr6:107045600-107076600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr6:107048200-107070200	Weak transcription	Lung	lung
48	chr6:107048400-107063400	Weak transcription	Left Ventricle	heart
49	chr6:107048600-107065200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr6:107048600-107066400	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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