Variant report

Variant	rs11039097
Chromosome Location	chr11:47131881-47131882
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:47131306..47132913-chr11:47144777..47146849,2	MCF-7	breast:
2	chr11:47124265..47126644-chr11:47130581..47133177,2	K562	blood:

Extended variants
information (count: 113 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:113)

rs_ID	r²[population]
rs10466478	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10501319	0.83[CHB][hapmap];0.94[GIH][hapmap];0.87[MEX][hapmap]
rs1055447	0.83[CHD][hapmap];0.84[GIH][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs1060573	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.80[MKK][hapmap];0.97[TSI][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10769225	0.82[CHB][hapmap]
rs10769226	0.83[CHB][hapmap];0.91[GIH][hapmap];0.83[MEX][hapmap]
rs10769227	0.83[CHB][hapmap]
rs10769230	0.86[ASN][1000 genomes]
rs10769233	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10769234	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10769239	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10838635	0.83[CHB][hapmap];0.91[GIH][hapmap]
rs10838640	0.83[CHB][hapmap]
rs10838644	0.83[CHB][hapmap];0.91[GIH][hapmap];0.86[MEX][hapmap]
rs10838646	0.83[CHB][hapmap]
rs10838652	0.83[CHB][hapmap];0.91[GIH][hapmap];0.87[MEX][hapmap]
rs10838654	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10838658	0.82[CHB][hapmap]
rs10838659	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10838660	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10838662	0.83[CHB][hapmap];0.94[GIH][hapmap];0.83[MEX][hapmap]
rs10838663	0.83[CHB][hapmap]
rs10838664	0.83[CHB][hapmap];0.88[GIH][hapmap]
rs11039035	0.83[CHB][hapmap]
rs11039074	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11039086	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11039105	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11039107	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11039112	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11039119	0.94[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.94[GIH][hapmap];0.94[JPT][hapmap];0.87[MEX][hapmap];0.94[TSI][hapmap];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11039124	0.89[ASN][1000 genomes]
rs11039134	0.84[ASN][1000 genomes]
rs11600292	0.83[CHB][hapmap];0.94[GIH][hapmap];0.86[MEX][hapmap]
rs11600668	0.94[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.94[GIH][hapmap];0.94[JPT][hapmap];0.90[LWK][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11601798	0.85[CHB][hapmap]
rs11602250	0.84[CHB][hapmap]
rs12224096	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12273333	0.84[YRI][hapmap]
rs12291341	0.85[ASN][1000 genomes]
rs12417519	0.83[CHB][hapmap];0.91[GIH][hapmap];0.87[MEX][hapmap]
rs12574410	0.86[CHB][hapmap]
rs12796744	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12807887	0.89[ASN][1000 genomes]
rs17790204	0.82[CHB][hapmap]
rs1872896	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1965952	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1976142	0.83[ASN][1000 genomes]
rs1976143	0.85[ASN][1000 genomes]
rs2018527	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2029298	0.95[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.92[GIH][hapmap];0.83[JPT][hapmap];0.87[MEX][hapmap];0.92[TSI][hapmap];0.85[ASN][1000 genomes]
rs2087215	0.83[CHB][hapmap];0.80[CHD][hapmap];0.94[GIH][hapmap]
rs2279438	0.83[CHB][hapmap]
rs2279439	0.83[CHB][hapmap];0.88[GIH][hapmap]
rs4237547	0.85[ASN][1000 genomes]
rs4319472	1.00[CEU][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4394802	0.91[GIH][hapmap];0.82[MEX][hapmap]
rs4528282	0.82[CHB][hapmap]
rs4548577	0.83[CHB][hapmap]
rs4567413	0.95[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.89[GIH][hapmap];0.83[JPT][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.85[ASN][1000 genomes]
rs4579897	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4581406	0.83[CHB][hapmap];0.91[GIH][hapmap]
rs4587689	0.83[CHB][hapmap];0.80[CHD][hapmap];0.91[GIH][hapmap];0.87[MEX][hapmap]
rs4752815	0.83[CHB][hapmap];0.91[GIH][hapmap];0.87[MEX][hapmap]
rs4752816	0.83[CHB][hapmap];0.91[GIH][hapmap];0.87[MEX][hapmap]
rs4752951	0.82[CHB][hapmap]
rs4752952	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4752957	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4752962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4752963	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4752965	0.83[CHB][hapmap];0.80[CHD][hapmap]
rs4752967	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4752969	0.83[CHB][hapmap];0.94[GIH][hapmap];0.82[MEX][hapmap]
rs4752971	0.95[CEU][hapmap];0.89[ASN][1000 genomes]
rs57323109	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6485715	0.83[CHB][hapmap];0.91[GIH][hapmap];0.87[MEX][hapmap]
rs6485716	0.86[CHB][hapmap]
rs6485721	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6485722	0.88[ASN][1000 genomes]
rs6485726	0.83[CHB][hapmap];0.91[GIH][hapmap];0.87[MEX][hapmap]
rs6485739	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7103581	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7108902	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7111270	0.83[CHB][hapmap]
rs7111764	0.85[ASN][1000 genomes]
rs7112854	0.82[CHB][hapmap];0.80[CHD][hapmap];0.91[GIH][hapmap];0.87[MEX][hapmap]
rs7118546	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7119952	0.86[ASN][1000 genomes]
rs7121418	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7124648	0.83[CHB][hapmap];0.91[GIH][hapmap];0.87[MEX][hapmap]
rs7125807	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.89[ASN][1000 genomes]
rs7126005	0.83[CHB][hapmap];0.91[GIH][hapmap];0.87[MEX][hapmap]
rs7128325	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7128650	0.83[CHB][hapmap];0.91[GIH][hapmap];0.87[MEX][hapmap]
rs7130006	0.83[CHB][hapmap];0.86[GIH][hapmap]
rs7130947	0.83[CHB][hapmap];0.91[GIH][hapmap];0.87[MEX][hapmap]
rs747650	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.97[TSI][hapmap];0.92[YRI][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7479189	1.00[CEU][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7931260	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs7935346	0.91[GIH][hapmap]
rs7937101	0.95[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.89[GIH][hapmap];0.84[JPT][hapmap];0.84[MEX][hapmap];0.92[TSI][hapmap];0.85[ASN][1000 genomes]
rs7937410	0.83[CHB][hapmap];0.88[GIH][hapmap]
rs7937950	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7938169	0.83[CHB][hapmap];0.91[GIH][hapmap];0.87[MEX][hapmap]
rs7940240	0.83[CHB][hapmap];0.88[GIH][hapmap]
rs7940441	0.83[GIH][hapmap]
rs7942473	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7945315	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.84[MKK][hapmap];0.97[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7945558	0.83[CHB][hapmap];0.88[GIH][hapmap]
rs7946709	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7947878	0.85[ASN][1000 genomes]
rs7950753	0.83[CHB][hapmap];0.91[GIH][hapmap]
rs923324	0.82[CHB][hapmap]
rs9633886	0.87[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11039097	F2	cis	cerebellum	SCAN
rs11039097	CTD-2384B9.1	cis	Nerve Tibial	GTEx

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:47121200-47132600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr11:47121600-47140200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr11:47122400-47140400	Weak transcription	Pancreas	Pancrea
4	chr11:47123000-47132600	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr11:47124600-47132800	Weak transcription	Thymus	Thymus
6	chr11:47124600-47133000	Weak transcription	Fetal Thymus	thymus
7	chr11:47124600-47159000	Weak transcription	Primary T cells from cord blood	blood
8	chr11:47125200-47132400	Enhancers	Fetal Muscle Leg	muscle
9	chr11:47125400-47133400	Enhancers	Fetal Lung	lung
10	chr11:47126400-47132000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr11:47126600-47133200	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr11:47127600-47132200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
13	chr11:47127600-47133400	Enhancers	Fetal Brain Male	brain
14	chr11:47128400-47132800	Weak transcription	Fetal Intestine Large	intestine
15	chr11:47128400-47133000	Weak transcription	Lung	lung
16	chr11:47128600-47140600	Weak transcription	NHEK	skin
17	chr11:47128800-47132400	Enhancers	Brain Angular Gyrus	brain
18	chr11:47128800-47143400	Weak transcription	Gastric	stomach
19	chr11:47129000-47132200	Enhancers	Brain Anterior Caudate	brain
20	chr11:47129200-47132000	Enhancers	Brain Inferior Temporal Lobe	brain
21	chr11:47129200-47132400	Enhancers	Brain Hippocampus Middle	brain
22	chr11:47129400-47132000	Enhancers	Brain Substantia Nigra	brain
23	chr11:47129400-47132400	Enhancers	Placenta	Placenta
24	chr11:47129400-47158000	Weak transcription	Aorta	Aorta
25	chr11:47129400-47158600	Weak transcription	Spleen	Spleen
26	chr11:47129600-47132000	Enhancers	NHLF	lung
27	chr11:47130000-47159000	Weak transcription	Hela-S3	cervix
28	chr11:47130600-47132000	Enhancers	HSMM	muscle
29	chr11:47130600-47132400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr11:47130600-47132400	Enhancers	Duodenum Mucosa	Duodenum
31	chr11:47131000-47132200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr11:47131000-47140400	Weak transcription	Stomach Smooth Muscle	stomach
33	chr11:47131200-47132400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr11:47131400-47133000	Weak transcription	Fetal Kidney	kidney
35	chr11:47131400-47135800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr11:47131400-47140400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr11:47131600-47132800	Enhancers	GM12878-XiMat	blood
38	chr11:47131600-47133000	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr11:47131600-47134200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr11:47131600-47150400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr11:47131600-47155000	Weak transcription	Right Atrium	heart
42	chr11:47131600-47159400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr11:47131800-47132400	Enhancers	Fetal Brain Female	brain
44	chr11:47131800-47150600	Weak transcription	Fetal Stomach	stomach
45	chr11:47131800-47161200	Weak transcription	Brain Cingulate Gyrus	brain

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