Variant report

Variant	rs150533
Chromosome Location	chr6:25535612-25535613
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:25534168..25536481-chr6:25615973..25617556,2	K562	blood:
2	chr16:14378410..14380912-chr6:25533629..25536492,2	MCF-7	breast:
3	chr6:25521712..25524594-chr6:25534397..25537297,2	K562	blood:
4	chr6:25535010..25536623-chr6:25538569..25540759,2	K562	blood:
5	chr6:25534152..25536641-chr6:25537227..25540141,3	K562	blood:

Extended variants
information (count: 55 )
Associated
traits (count: 2 )

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];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[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][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]
rs184202	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1884575	1.00[JPT][hapmap]
rs212927	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.92[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][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	0.96[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap];0.81[ASN][1000 genomes]
rs212931	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.85[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[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];1.00[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[ASW][hapmap];1.00[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];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212939	0.92[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][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[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][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[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][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]
rs485567	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]
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[CHD][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6927384	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][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]
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]
rs9348685	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][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:2)

SNP	Gene	Cis/trans	Tissue	Source
rs150533	HIST1H2AM	cis	cerebellum	SCAN
rs150533	LRRC16	cis	lesional skin	skin_eQTL

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25456400-25537000	Weak transcription	Esophagus	oesophagus
2	chr6:25471600-25597200	Weak transcription	Gastric	stomach
3	chr6:25490400-25543000	Weak transcription	Hela-S3	cervix
4	chr6:25494000-25551400	Weak transcription	Left Ventricle	heart
5	chr6:25506600-25537400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:25509800-25548600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr6:25514200-25542600	Weak transcription	Adipose Nuclei	Adipose
8	chr6:25514200-25558400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr6:25514400-25541600	Weak transcription	Colonic Mucosa	Colon
10	chr6:25514800-25537800	Weak transcription	Primary B cells from peripheral blood	blood
11	chr6:25515000-25538600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr6:25516200-25547000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr6:25516200-25556800	Weak transcription	Pancreas	Pancrea
14	chr6:25516400-25556800	Weak transcription	Fetal Stomach	stomach
15	chr6:25516600-25539600	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr6:25516600-25544000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:25516800-25537200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr6:25516800-25545200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr6:25516800-25606400	Weak transcription	Lung	lung
20	chr6:25517000-25542200	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr6:25517400-25540200	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr6:25517400-25542200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr6:25519000-25540000	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr6:25519000-25540000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr6:25519800-25543200	Weak transcription	Primary hematopoietic stem cells	blood
26	chr6:25519800-25556800	Weak transcription	Ovary	ovary
27	chr6:25521600-25536800	Weak transcription	Brain Anterior Caudate	brain
28	chr6:25521600-25541000	Weak transcription	HSMMtube	muscle
29	chr6:25521600-25541000	Weak transcription	NHEK	skin
30	chr6:25522200-25545400	Weak transcription	Small Intestine	intestine
31	chr6:25522400-25538600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr6:25522400-25588600	Weak transcription	HMEC	breast
33	chr6:25522600-25537400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr6:25522800-25540000	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr6:25523000-25550600	Weak transcription	Primary T helper cells PMA-I stimulated	--
36	chr6:25523000-25577200	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr6:25523200-25538000	Weak transcription	Thymus	Thymus
38	chr6:25523200-25541400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr6:25523400-25538400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr6:25523400-25544200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr6:25525000-25538600	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr6:25525400-25538400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr6:25527800-25540400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr6:25529400-25538000	Weak transcription	Primary T helper cells fromperipheralblood	blood
45	chr6:25530600-25539000	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr6:25530800-25537600	Weak transcription	Fetal Kidney	kidney
47	chr6:25530800-25584200	Weak transcription	Fetal Intestine Small	intestine
48	chr6:25531200-25538000	Weak transcription	Fetal Thymus	thymus
49	chr6:25532800-25535800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr6:25533000-25541400	Strong transcription	Primary T cells from cord blood	blood

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