Variant report

Variant	rs485567
Chromosome Location	chr6:25528913-25528914
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10456322	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10456323	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752017	1.00[JPT][hapmap]
rs11759560	1.00[JPT][hapmap]
rs11759648	1.00[JPT][hapmap]
rs12191432	1.00[JPT][hapmap]
rs12192331	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12192342	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12195457	1.00[JPT][hapmap]
rs12203031	1.00[JPT][hapmap]
rs12203442	1.00[JPT][hapmap]
rs12207668	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12207791	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12208868	1.00[JPT][hapmap]
rs12211739	1.00[JPT][hapmap]
rs12214693	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1410443	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs150533	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs184202	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1876372	1.00[CHB][hapmap]
rs1884575	1.00[JPT][hapmap]
rs212927	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212929	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs212931	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212932	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212935	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs212937	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212939	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs212940	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2762357	0.83[EUR][1000 genomes]
rs301376	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs301377	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs301388	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3827502	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs441472	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs443641	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs453181	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs55633691	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55883446	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56285037	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56383372	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6902158	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6927384	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6931843	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs716796	1.00[JPT][hapmap]
rs72839082	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72839085	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72839087	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72839088	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72839089	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs760865	1.00[JPT][hapmap]
rs7738866	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7742338	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7762537	1.00[JPT][hapmap]
rs9348685	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9379774	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9461151	1.00[JPT][hapmap]
rs9461190	1.00[JPT][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs485567	LRRC16	cis	lesional skin	skin_eQTL

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25456400-25537000	Weak transcription	Esophagus	oesophagus
2	chr6:25463200-25532200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:25471600-25597200	Weak transcription	Gastric	stomach
4	chr6:25483000-25532200	Weak transcription	Rectal Smooth Muscle	rectum
5	chr6:25490400-25543000	Weak transcription	Hela-S3	cervix
6	chr6:25494000-25551400	Weak transcription	Left Ventricle	heart
7	chr6:25506600-25537400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr6:25509800-25548600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr6:25511600-25531400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
10	chr6:25513800-25530200	Weak transcription	Brain Germinal Matrix	brain
11	chr6:25514200-25542600	Weak transcription	Adipose Nuclei	Adipose
12	chr6:25514200-25558400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr6:25514400-25541600	Weak transcription	Colonic Mucosa	Colon
14	chr6:25514800-25537800	Weak transcription	Primary B cells from peripheral blood	blood
15	chr6:25515000-25538600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr6:25516200-25547000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr6:25516200-25556800	Weak transcription	Pancreas	Pancrea
18	chr6:25516400-25556800	Weak transcription	Fetal Stomach	stomach
19	chr6:25516600-25539600	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr6:25516600-25544000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr6:25516800-25537200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr6:25516800-25545200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr6:25516800-25606400	Weak transcription	Lung	lung
24	chr6:25517000-25542200	Weak transcription	Primary T cells fromperipheralblood	blood
25	chr6:25517200-25530200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr6:25517400-25540200	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr6:25517400-25542200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr6:25519000-25540000	Weak transcription	HUES64 Cell Line	embryonic stem cell
29	chr6:25519000-25540000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr6:25519800-25543200	Weak transcription	Primary hematopoietic stem cells	blood
31	chr6:25519800-25556800	Weak transcription	Ovary	ovary
32	chr6:25521200-25533200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr6:25521600-25533000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr6:25521600-25536800	Weak transcription	Brain Anterior Caudate	brain
35	chr6:25521600-25541000	Weak transcription	HSMMtube	muscle
36	chr6:25521600-25541000	Weak transcription	NHEK	skin
37	chr6:25522200-25545400	Weak transcription	Small Intestine	intestine
38	chr6:25522400-25538600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr6:25522400-25588600	Weak transcription	HMEC	breast
40	chr6:25522600-25530000	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr6:25522600-25537400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr6:25522800-25540000	Weak transcription	HUES48 Cell Line	embryonic stem cell
43	chr6:25523000-25535000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr6:25523000-25550600	Weak transcription	Primary T helper cells PMA-I stimulated	--
45	chr6:25523000-25577200	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr6:25523200-25532800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr6:25523200-25535200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr6:25523200-25535200	Weak transcription	Fetal Lung	lung
49	chr6:25523200-25538000	Weak transcription	Thymus	Thymus
50	chr6:25523200-25541400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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