Variant report

Variant	rs1150666
Chromosome Location	chr6:28123928-28123929
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28122633..28124564-chr6:28302232..28305019,2	K562	blood:
2	chr6:28121677..28124555-chr6:28208936..28210698,3	K562	blood:
3	chr6:28123814..28127581-chr6:28129241..28131272,3	MCF-7	breast:
4	chr6:28122889..28124668-chr6:28176710..28180566,3	K562	blood:
5	chr6:28122601..28125129-chr6:28187296..28189318,2	K562	blood:

Variant related genes	Relation type
ENSG00000235109	Chromatin interaction
ENSG00000226314	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 25 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs1071893	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1150678	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12173797	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1225592	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1225595	0.82[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1225716	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1233691	0.91[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1233708	0.91[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.82[TSI][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs149897	0.81[ASW][hapmap];0.95[CEU][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap];0.87[TSI][hapmap];0.82[YRI][hapmap]
rs149900	0.87[ASW][hapmap];0.82[YRI][hapmap]
rs149942	0.81[ASW][hapmap];0.95[CEU][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap];0.87[TSI][hapmap];0.82[YRI][hapmap]
rs149944	0.95[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.82[YRI][hapmap]
rs149945	0.95[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.82[YRI][hapmap]
rs149955	0.95[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.82[YRI][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs149958	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs149959	0.95[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.82[YRI][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs149961	0.82[YRI][hapmap]
rs149962	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs149965	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs149969	0.82[YRI][hapmap]
rs149970	0.82[CHB][hapmap];0.81[MEX][hapmap];0.82[YRI][hapmap]
rs149972	0.95[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.82[YRI][hapmap]
rs149989	0.95[CEU][hapmap];0.94[CHB][hapmap];0.84[JPT][hapmap];0.82[YRI][hapmap]
rs156738	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs156739	0.95[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.82[YRI][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1631552	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];0.97[TSI][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs172166	0.82[YRI][hapmap]
rs1770131	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17711801	0.80[CEU][hapmap]
rs183244	0.86[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.88[YRI][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs188105	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs203876	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];0.97[TSI][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs203877	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];0.97[TSI][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs203882	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs203883	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs203884	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];0.97[TSI][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs203890	0.84[ASW][hapmap];0.82[YRI][hapmap]
rs203892	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs203893	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.99[MKK][hapmap];0.97[TSI][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2622319	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2791332	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs476167	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs536704	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9295760	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9393881	0.87[ASW][hapmap]
rs9461443	0.91[CEU][hapmap]
rs9468274	0.87[ASW][hapmap];0.82[YRI][hapmap]

mRNA abundance (count:25)

SNP	Gene	Cis/trans	Tissue	Source
rs1150666	NKAPL	cis	parietal	SCAN
rs1150666	AL022393.7	cis	Muscle Skeletal	GTEx
rs1150666	ZKSCAN3	cis	cerebellum	SCAN
rs1150666	HIST1H2BC	cis	parietal	SCAN
rs1150666	BTN3A2	Cis_chr	lymphoblastoid	RTeQTL
rs1150666	AL022393.7	cis	Heart Left Ventricle	GTEx
rs1150666	ZNF204P	cis	parietal	SCAN
rs1150666	AL022393.7	cis	Artery Tibial	GTEx
rs1150666	ZNF323	cis	parietal	SCAN
rs1150666	AL022393.7	cis	Nerve Tibial	GTEx
rs1150666	ZNF192	cis	parietal	SCAN
rs1150666	ZNF192	cis	cerebellum	SCAN
rs1150666	ZNF323	cis	cerebellum	SCAN
rs1150666	RP1-265C24.9	cis	Heart Left Ventricle	GTEx
rs1150666	ZSCAN23	cis	cerebellum	SCAN
rs1150666	OR2B6	cis	parietal	SCAN
rs1150666	ZKSCAN3	cis	parietal	SCAN
rs1150666	RP5-874C20.3	cis	Nerve Tibial	GTEx
rs1150666	OR1F12	cis	Thyroid	GTEx
rs1150666	ZNF165	cis	lymphoblastoid	seeQTL
rs1150666	ZSCAN31	cis	Thyroid	GTEx
rs1150666	OR2B8P	cis	Thyroid	GTEx
rs1150666	RP1-265C24.5	cis	Muscle Skeletal	GTEx
rs1150666	ZNF187	cis	parietal	SCAN
rs1150666	ZNF187	cis	cerebellum	SCAN

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28111400-28129200	Weak transcription	Right Atrium	heart
2	chr6:28111800-28127000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr6:28112000-28124800	Strong transcription	Primary T cells fromperipheralblood	blood
4	chr6:28112000-28126600	Strong transcription	Primary T helper cells fromperipheralblood	blood
5	chr6:28112400-28124800	Strong transcription	HepG2	liver
6	chr6:28113200-28127200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr6:28113400-28124000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr6:28113800-28124600	Strong transcription	Dnd41	blood
9	chr6:28113800-28125600	Strong transcription	Primary T helper cells PMA-I stimulated	--
10	chr6:28115200-28125800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:28115200-28127200	Strong transcription	Fetal Brain Female	brain
12	chr6:28115400-28124400	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr6:28115400-28124600	Strong transcription	Cortex derived primary cultured neurospheres	brain
14	chr6:28115400-28124600	Strong transcription	NHDF-Ad	bronchial
15	chr6:28115400-28124800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr6:28115400-28125000	Strong transcription	Muscle Satellite Cultured Cells	--
17	chr6:28115400-28125000	Strong transcription	Brain Germinal Matrix	brain
18	chr6:28115400-28125200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr6:28115400-28125200	Strong transcription	Fetal Intestine Large	intestine
20	chr6:28115400-28125200	Strong transcription	Fetal Muscle Leg	muscle
21	chr6:28115400-28125400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
22	chr6:28115400-28125400	Strong transcription	Ovary	ovary
23	chr6:28115400-28126600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr6:28115400-28127000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
25	chr6:28115400-28127000	Strong transcription	Fetal Muscle Trunk	muscle
26	chr6:28115600-28124200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr6:28115600-28125400	Strong transcription	Brain Inferior Temporal Lobe	brain
28	chr6:28115600-28125800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr6:28115600-28126200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr6:28115800-28124800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr6:28115800-28124800	Strong transcription	Left Ventricle	heart
32	chr6:28115800-28125200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr6:28115800-28125200	Strong transcription	Adipose Nuclei	Adipose
34	chr6:28115800-28125200	Strong transcription	Rectal Mucosa Donor 29	rectum
35	chr6:28115800-28125400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr6:28115800-28125400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr6:28115800-28125600	Strong transcription	Rectal Mucosa Donor 31	rectum
38	chr6:28115800-28127400	Strong transcription	Skeletal Muscle Female	skeletal muscle
39	chr6:28116000-28124800	Strong transcription	Placenta	Placenta
40	chr6:28116000-28125800	Strong transcription	Duodenum Smooth Muscle	Duodenum
41	chr6:28116000-28126800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr6:28116000-28127000	Strong transcription	Brain Hippocampus Middle	brain
43	chr6:28116000-28127200	Strong transcription	Stomach Smooth Muscle	stomach
44	chr6:28116200-28124200	Strong transcription	Right Ventricle	heart
45	chr6:28116200-28124800	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr6:28116200-28124800	Strong transcription	Brain Anterior Caudate	brain
47	chr6:28116200-28126400	Strong transcription	Placenta Amnion	Placenta Amnion
48	chr6:28116200-28127000	Strong transcription	Fetal Lung	lung
49	chr6:28116400-28125400	Strong transcription	Colon Smooth Muscle	Colon
50	chr6:28118400-28124400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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