Variant report

Variant	rs2568086
Chromosome Location	chr11:8976090-8976091
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 99 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs10219366	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1025438	0.80[ASN][1000 genomes]
rs10769974	0.81[AMR][1000 genomes]
rs10769976	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10769977	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10840150	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10840151	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10840153	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10840154	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10840155	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10840156	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11042121	0.85[EUR][1000 genomes]
rs11042128	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11042129	0.82[AMR][1000 genomes]
rs11042131	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12785559	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12786377	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12790020	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12794962	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12798311	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12805109	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1347016	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1985026	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2016844	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2043218	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2056903	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2116510	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2116511	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2163625	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2246878	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2247038	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2252102	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2316523	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2316541	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2568034	0.92[EUR][1000 genomes]
rs2568042	0.89[EUR][1000 genomes]
rs2568047	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2568069	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2568074	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2568075	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2568077	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2568079	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2568081	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2568087	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2568088	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2653562	0.80[EUR][1000 genomes]
rs2653565	0.89[EUR][1000 genomes]
rs2653587	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs2653590	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2653594	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2653597	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2653601	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2653604	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2653611	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2742473	0.87[ASN][1000 genomes]
rs2742486	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2742487	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2742488	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2742489	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2742491	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2742493	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2742494	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs2742495	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2742496	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2742497	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2742504	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2742505	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2742512	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2742513	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2742514	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2742519	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2742521	0.91[EUR][1000 genomes]
rs3751063	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3751065	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3751066	0.82[AMR][1000 genomes]
rs3751068	0.87[AMR][1000 genomes]
rs3763911	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3763912	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4264185	0.81[EUR][1000 genomes]
rs4370967	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4909951	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4910181	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4910313	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7106152	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7124403	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72851596	0.88[ASN][1000 genomes]
rs72852790	0.98[ASN][1000 genomes]
rs72853712	0.98[ASN][1000 genomes]
rs7932377	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7940895	0.91[ASN][1000 genomes]
rs7942026	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7951226	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs909464	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9300096	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758256	chr11:8784813-9009573	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	esv2759803	chr11:8784813-9009573	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv435923	chr11:8839325-9000602	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv832062	chr11:8849295-9009472	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	esv3413845	chr11:8887279-9285127	Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2568086	C11orf17	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:8944600-8985000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:8947000-8977000	Weak transcription	Aorta	Aorta
3	chr11:8954400-8984400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr11:8955200-8976200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr11:8957000-8980800	Weak transcription	Fetal Heart	heart
6	chr11:8963200-8985000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr11:8965800-8984800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr11:8966400-8984000	Weak transcription	Fetal Brain Male	brain
9	chr11:8966800-8977000	Weak transcription	Esophagus	oesophagus
10	chr11:8966800-8980800	Weak transcription	Small Intestine	intestine
11	chr11:8968000-8978200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr11:8968000-8978400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
13	chr11:8968200-8980800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr11:8968200-8985000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr11:8968400-8978600	Strong transcription	Liver	Liver
16	chr11:8968400-8979000	Strong transcription	Primary neutrophils fromperipheralblood	blood
17	chr11:8968400-8979200	Strong transcription	Primary B cells from cord blood	blood
18	chr11:8968600-8976200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr11:8968600-8977800	Strong transcription	Primary B cells from peripheral blood	blood
20	chr11:8968600-8978000	Strong transcription	Primary T helper cells fromperipheralblood	blood
21	chr11:8968600-8978000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr11:8968600-8978800	Strong transcription	Primary T cells fromperipheralblood	blood
23	chr11:8968600-8978800	Strong transcription	Duodenum Mucosa	Duodenum
24	chr11:8968600-8979400	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr11:8968600-8981000	Strong transcription	Monocytes-CD14+_RO01746	blood
26	chr11:8968800-8976200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr11:8968800-8978000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr11:8968800-8978000	Strong transcription	Rectal Mucosa Donor 31	rectum
29	chr11:8968800-8978000	Strong transcription	Skeletal Muscle Female	skeletal muscle
30	chr11:8968800-8978400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr11:8968800-8978400	Strong transcription	Fetal Intestine Large	intestine
32	chr11:8968800-8978600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr11:8968800-8978600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr11:8968800-8978600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr11:8968800-8978600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr11:8968800-8978800	Strong transcription	Fetal Muscle Leg	muscle
37	chr11:8968800-8978800	Strong transcription	Placenta	Placenta
38	chr11:8968800-8978800	Strong transcription	Left Ventricle	heart
39	chr11:8968800-8979200	Strong transcription	Adipose Nuclei	Adipose
40	chr11:8968800-8980800	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr11:8969000-8976200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr11:8969000-8977800	Strong transcription	Fetal Thymus	thymus
43	chr11:8969000-8978000	Strong transcription	Primary T helper cells PMA-I stimulated	--
44	chr11:8969000-8978000	Strong transcription	Sigmoid Colon	Sigmoid Colon
45	chr11:8969000-8978600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr11:8969000-8979200	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr11:8969200-8977600	Strong transcription	Fetal Muscle Trunk	muscle
48	chr11:8969400-8978600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr11:8969400-8980800	Weak transcription	HSMMtube	muscle
50	chr11:8970200-8976400	Weak transcription	Ovary	ovary

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