Variant report

Variant	rs12701671
Chromosome Location	chr7:38828106-38828107
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 105 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10085487	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1012976	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10224856	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs10225415	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs10225550	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10229055	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs10232614	1.00[ASN][1000 genomes]
rs10239757	1.00[ASN][1000 genomes]
rs10239904	1.00[ASN][1000 genomes]
rs10242407	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10254354	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs10254873	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10264217	1.00[ASN][1000 genomes]
rs10266279	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10270427	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10275873	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs10951574	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs11983387	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs12701653	1.00[CHB][hapmap]
rs12701656	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12701657	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12701661	0.82[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs13224619	0.82[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs13224857	0.85[EUR][1000 genomes]
rs13229445	0.85[EUR][1000 genomes]
rs13230196	0.82[CEU][hapmap];1.00[CHB][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13231372	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13235997	0.82[CEU][hapmap];1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs13236092	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13238093	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1558111	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs17680342	0.82[CEU][hapmap]
rs2040878	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs2058073	0.83[AMR][1000 genomes]
rs2079546	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2108508	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2189854	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs2190667	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2190668	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2190670	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2214667	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs2214668	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs2215032	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2245773	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs2286089	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs2286093	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs2286101	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs2392599	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs2392608	0.82[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2392610	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs34349310	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34358406	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34621392	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34886315	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs34997080	0.85[EUR][1000 genomes]
rs35400125	0.82[EUR][1000 genomes]
rs35667896	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35816439	0.85[EUR][1000 genomes]
rs35843038	0.85[EUR][1000 genomes]
rs36004953	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36114334	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36121032	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs37476	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs40445	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4720300	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs4723780	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs4723781	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs4723784	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs4723787	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs4723802	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs6462871	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6462873	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs6462874	1.00[ASN][1000 genomes]
rs6947695	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6949958	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs6951429	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs6960945	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs6963090	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs6964985	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6967384	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs6971632	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6974764	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6975410	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs6976302	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs6976579	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs6976580	1.00[CHB][hapmap]
rs6978805	1.00[ASN][1000 genomes]
rs6979423	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs71548633	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73370730	0.85[EUR][1000 genomes]
rs7782140	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs7782277	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs7783723	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7784065	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7784609	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7787423	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs7789864	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7790054	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7793250	1.00[CHB][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7799887	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7802052	0.91[EUR][1000 genomes]
rs7803488	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9638945	0.82[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs976352	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9886108	0.82[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12701671	VPS41	Cis_1M	lymphoblastoid	RTeQTL
rs12701671	FAM183B	cis	lung	GTEx

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:38757200-38835400	Weak transcription	Psoas Muscle	Psoas
2	chr7:38763400-38828800	Weak transcription	HepG2	liver
3	chr7:38780800-38828800	Weak transcription	Gastric	stomach
4	chr7:38784800-38835000	Weak transcription	NHEK	skin
5	chr7:38785600-38834600	Weak transcription	HMEC	breast
6	chr7:38785600-38835000	Weak transcription	NH-A	brain
7	chr7:38793400-38828600	Weak transcription	Small Intestine	intestine
8	chr7:38793400-38861200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr7:38793600-38832600	Weak transcription	Brain Angular Gyrus	brain
10	chr7:38798200-38828800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr7:38800200-38837600	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr7:38803200-38845400	Weak transcription	Colonic Mucosa	Colon
13	chr7:38803200-38846000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr7:38804400-38836200	Weak transcription	Fetal Brain Male	brain
15	chr7:38806200-38828800	Weak transcription	Pancreas	Pancrea
16	chr7:38806600-38828800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr7:38806800-38828400	Weak transcription	Fetal Lung	lung
18	chr7:38806800-38828800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr7:38806800-38828800	Weak transcription	Brain Substantia Nigra	brain
20	chr7:38806800-38828800	Weak transcription	Esophagus	oesophagus
21	chr7:38806800-38828800	Weak transcription	Thymus	Thymus
22	chr7:38806800-38828800	Weak transcription	Spleen	Spleen
23	chr7:38806800-38832800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr7:38809200-38828600	Weak transcription	Brain Anterior Caudate	brain
25	chr7:38812600-38831400	Weak transcription	A549	lung
26	chr7:38812800-38834800	Weak transcription	HSMMtube	muscle
27	chr7:38813000-38828800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr7:38813600-38828800	Weak transcription	Fetal Muscle Trunk	muscle
29	chr7:38813800-38828800	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr7:38813800-38830600	Weak transcription	Rectal Smooth Muscle	rectum
31	chr7:38813800-38834200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr7:38813800-38836400	Weak transcription	HUVEC	blood vessel
33	chr7:38813800-38839600	Weak transcription	Right Ventricle	heart
34	chr7:38813800-38857400	Weak transcription	HSMM	muscle
35	chr7:38814000-38828600	Weak transcription	Fetal Muscle Leg	muscle
36	chr7:38814800-38828600	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr7:38815000-38828400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr7:38815000-38828600	Weak transcription	Ovary	ovary
39	chr7:38815000-38829000	Weak transcription	K562	blood
40	chr7:38816200-38828800	Weak transcription	Fetal Brain Female	brain
41	chr7:38816400-38828600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr7:38816400-38828600	Weak transcription	Stomach Smooth Muscle	stomach
43	chr7:38816600-38828600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
44	chr7:38816600-38828800	Weak transcription	Aorta	Aorta
45	chr7:38816600-38828800	Weak transcription	Fetal Thymus	thymus
46	chr7:38816600-38828800	Weak transcription	NHLF	lung
47	chr7:38818400-38833000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
48	chr7:38819400-38828800	Weak transcription	Pancreatic Islets	Pancreatic Islet
49	chr7:38820000-38836600	Strong transcription	Monocytes-CD14+_RO01746	blood
50	chr7:38820600-38828800	Weak transcription	Lung	lung

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