Variant report

Variant	rs11065142
Chromosome Location	chr12:120931756-120931757
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:120727403..120732311-chr12:120930839..120935563,15	MCF-7	breast:
2	chr12:120899786..120915162-chr12:120926090..120939394,54	MCF-7	breast:
3	chr12:120905117..120912400-chr12:120930505..120935641,13	K562	blood:
4	chr12:120729381..120731449-chr12:120928979..120932079,3	K562	blood:
5	chr12:120903651..120915747-chr12:120930491..120936868,24	K562	blood:
6	chr12:120729347..120730894-chr12:120930653..120933497,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000202538	Chromatin interaction
ENSG00000200795	Chromatin interaction
ENSG00000111786	Chromatin interaction
ENSG00000088986	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10789	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11065140	0.80[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11548262	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11608416	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11608807	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11609119	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11611781	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11611814	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11612519	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11613214	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11614224	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11615264	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11615719	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11829765	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16950293	0.80[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.95[TSI][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16950305	1.00[CHD][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs2280168	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35696148	0.84[ASN][1000 genomes]
rs3742049	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3759402	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3817301	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3829291	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4102203	1.00[CEU][hapmap];0.94[GIH][hapmap];0.95[TSI][hapmap];0.96[EUR][1000 genomes]
rs4439575	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57646360	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs59088579	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59201986	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60162888	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6490292	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs66840048	0.86[ASN][1000 genomes]
rs7027	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7134710	0.97[EUR][1000 genomes]
rs719449	0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs719450	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.95[TSI][hapmap];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7296473	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7297861	0.88[ASN][1000 genomes]
rs7299954	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7314103	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73403923	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73403943	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73403947	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73403968	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73403975	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73405628	0.88[ASN][1000 genomes]
rs7961895	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7962410	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7964008	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7973555	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7979366	0.92[ASW][hapmap];0.80[YRI][hapmap]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11065142	GATC	cis	parietal	SCAN
rs11065142	GATC	cis	cerebellum	SCAN
rs11065142	POP5	cis	parietal	SCAN

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:120908200-120933200	Weak transcription	Aorta	Aorta
2	chr12:120908400-120932400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr12:120908400-120932400	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr12:120908600-120932800	Weak transcription	Primary hematopoietic stem cells	blood
5	chr12:120908600-120932800	Weak transcription	Adipose Nuclei	Adipose
6	chr12:120908600-120932800	Weak transcription	Brain Germinal Matrix	brain
7	chr12:120908600-120932800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr12:120908600-120933000	Weak transcription	Thymus	Thymus
9	chr12:120911000-120932800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr12:120912800-120932600	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr12:120913000-120932600	Weak transcription	NH-A	brain
12	chr12:120913200-120932800	Weak transcription	HSMM	muscle
13	chr12:120913800-120932400	Weak transcription	HMEC	breast
14	chr12:120914400-120932600	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr12:120916400-120932800	Weak transcription	Liver	Liver
16	chr12:120918200-120933000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr12:120918400-120932800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr12:120919000-120933000	Weak transcription	Primary B cells from cord blood	blood
19	chr12:120920200-120933000	Weak transcription	Right Ventricle	heart
20	chr12:120920800-120932800	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr12:120921000-120932600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr12:120922600-120932400	Weak transcription	Hela-S3	cervix
23	chr12:120923800-120932800	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr12:120923800-120933000	Weak transcription	Colonic Mucosa	Colon
25	chr12:120924400-120932400	Weak transcription	HepG2	liver
26	chr12:120924400-120932800	Weak transcription	Fetal Brain Male	brain
27	chr12:120924800-120932600	Weak transcription	GM12878-XiMat	blood
28	chr12:120925600-120932400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr12:120925600-120933000	Weak transcription	Gastric	stomach
30	chr12:120925800-120933000	Weak transcription	Rectal Smooth Muscle	rectum
31	chr12:120926000-120932800	Weak transcription	Brain Substantia Nigra	brain
32	chr12:120926200-120932600	Weak transcription	Osteobl	bone
33	chr12:120926400-120932600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr12:120926400-120932600	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr12:120926400-120932600	Weak transcription	Brain Anterior Caudate	brain
36	chr12:120926400-120932800	Weak transcription	Brain Cingulate Gyrus	brain
37	chr12:120926400-120933000	Weak transcription	Left Ventricle	heart
38	chr12:120926400-120933000	Weak transcription	Right Atrium	heart
39	chr12:120926400-120933000	Weak transcription	HSMMtube	muscle
40	chr12:120927000-120932600	Weak transcription	HUVEC	blood vessel
41	chr12:120927000-120932800	Weak transcription	Muscle Satellite Cultured Cells	--
42	chr12:120927200-120932400	Weak transcription	Dnd41	blood
43	chr12:120927400-120932600	Weak transcription	Fetal Lung	lung
44	chr12:120927400-120932800	Weak transcription	Fetal Heart	heart
45	chr12:120927600-120932600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr12:120927800-120932800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr12:120928200-120932800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr12:120928400-120932600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr12:120928600-120933000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr12:120929000-120932600	Weak transcription	Cortex derived primary cultured neurospheres	brain

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