Variant report

Variant	rs10456323
Chromosome Location	chr6:25550718-25550719
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:25545037..25548609-chr6:25549675..25554265,5	K562	blood:

Extended variants
information (count: 55 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10456322	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]
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];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12192342	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12195457	1.00[JPT][hapmap]
rs12203031	1.00[JPT][hapmap]
rs12203442	1.00[JPT][hapmap]
rs12207668	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12207791	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12208868	1.00[JPT][hapmap]
rs12211739	1.00[JPT][hapmap]
rs12214693	0.92[AMR][1000 genomes];0.95[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];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs184202	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1884575	1.00[JPT][hapmap]
rs212927	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]
rs212929	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs212931	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]
rs212932	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]
rs212935	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs212937	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]
rs212939	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs212940	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2762357	0.82[EUR][1000 genomes]
rs301376	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs301377	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs301388	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3827502	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap];0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs441472	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs443641	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs453181	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs485567	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]
rs55633691	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55883446	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56285037	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56383372	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6902158	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6927384	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6931843	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs716796	1.00[JPT][hapmap]
rs72839082	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72839085	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72839087	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72839088	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72839089	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7738866	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7742338	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9348685	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9379774	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[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
rs10456323	LRRC16	cis	lesional skin	skin_eQTL

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25471600-25597200	Weak transcription	Gastric	stomach
2	chr6:25494000-25551400	Weak transcription	Left Ventricle	heart
3	chr6:25514200-25558400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr6:25516200-25556800	Weak transcription	Pancreas	Pancrea
5	chr6:25516400-25556800	Weak transcription	Fetal Stomach	stomach
6	chr6:25516800-25606400	Weak transcription	Lung	lung
7	chr6:25519800-25556800	Weak transcription	Ovary	ovary
8	chr6:25522400-25588600	Weak transcription	HMEC	breast
9	chr6:25523000-25577200	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr6:25530800-25584200	Weak transcription	Fetal Intestine Small	intestine
11	chr6:25538600-25563600	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr6:25538600-25592800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:25539000-25561200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr6:25539200-25582000	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr6:25539600-25556800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr6:25539600-25565200	Weak transcription	Aorta	Aorta
17	chr6:25539800-25558200	Weak transcription	Thymus	Thymus
18	chr6:25540600-25580200	Weak transcription	Fetal Thymus	thymus
19	chr6:25540800-25550800	Weak transcription	Fetal Intestine Large	intestine
20	chr6:25540800-25556800	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr6:25541200-25553400	Weak transcription	Duodenum Mucosa	Duodenum
22	chr6:25541400-25558600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr6:25541400-25576200	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr6:25541600-25584400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr6:25541600-25612000	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr6:25541800-25558400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr6:25542400-25563600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr6:25543600-25551000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr6:25543600-25555600	Weak transcription	Primary hematopoietic stem cells	blood
30	chr6:25543800-25562000	Weak transcription	Adipose Nuclei	Adipose
31	chr6:25544000-25593600	Weak transcription	Fetal Lung	lung
32	chr6:25544600-25565000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr6:25547200-25600600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr6:25547600-25551400	Strong transcription	Primary T cells from cord blood	blood
35	chr6:25548200-25551400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
36	chr6:25548800-25557000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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