Variant report

Variant	rs13206086
Chromosome Location	chr6:71249933-71249934
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 162 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:155)

rs_ID	r²[population]
rs10485118	1.00[JPT][hapmap]
rs10485119	1.00[JPT][hapmap]
rs1048886	0.92[JPT][hapmap]
rs1075262	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1075263	1.00[JPT][hapmap]
rs10945230	1.00[JPT][hapmap]
rs10945236	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1140297	0.82[AMR][1000 genomes]
rs11965656	1.00[JPT][hapmap]
rs1208476	0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1208477	0.91[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12190556	0.82[CHB][hapmap];0.85[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12197942	1.00[JPT][hapmap]
rs12197963	1.00[JPT][hapmap]
rs12198920	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12203298	1.00[JPT][hapmap]
rs12205103	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12209965	1.00[JPT][hapmap]
rs12215765	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12216376	1.00[JPT][hapmap]
rs12526164	1.00[JPT][hapmap]
rs12526827	1.00[JPT][hapmap]
rs12527634	1.00[JPT][hapmap]
rs12529284	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs13199529	0.81[AMR][1000 genomes]
rs13202450	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13213357	0.81[AMR][1000 genomes]
rs13437371	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13654	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16869156	1.00[JPT][hapmap]
rs16869158	1.00[JPT][hapmap]
rs16869170	1.00[JPT][hapmap]
rs16869211	0.92[JPT][hapmap]
rs16869221	1.00[JPT][hapmap]
rs16869228	1.00[JPT][hapmap]
rs16869238	1.00[JPT][hapmap]
rs16869243	1.00[JPT][hapmap]
rs16869244	0.93[JPT][hapmap]
rs16869267	1.00[JPT][hapmap]
rs16869273	1.00[JPT][hapmap]
rs16869338	1.00[JPT][hapmap]
rs16869353	1.00[JPT][hapmap]
rs16869370	1.00[JPT][hapmap]
rs16869371	1.00[JPT][hapmap]
rs16869373	1.00[JPT][hapmap]
rs16880770	1.00[JPT][hapmap]
rs1739338	1.00[JPT][hapmap]
rs1775338	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1917344	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2207423	1.00[JPT][hapmap]
rs2273210	1.00[JPT][hapmap]
rs2293297	1.00[JPT][hapmap]
rs2295200	1.00[JPT][hapmap]
rs2346889	1.00[JPT][hapmap]
rs2346890	1.00[JPT][hapmap]
rs2347427	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2639297	1.00[JPT][hapmap]
rs2691505	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2691506	0.82[ASN][1000 genomes]
rs2747702	1.00[JPT][hapmap]
rs2747703	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28360504	0.84[ASN][1000 genomes]
rs2842063	0.92[JPT][hapmap]
rs3193656	1.00[JPT][hapmap]
rs34378057	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34710086	0.84[ASN][1000 genomes]
rs34873840	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35516318	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35542509	0.90[ASN][1000 genomes]
rs3736751	1.00[JPT][hapmap]
rs3736752	0.92[JPT][hapmap]
rs3763251	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3846746	0.93[JPT][hapmap]
rs3846748	1.00[JPT][hapmap]
rs3846750	1.00[JPT][hapmap]
rs3889007	1.00[JPT][hapmap]
rs4283855	1.00[JPT][hapmap]
rs4496758	1.00[JPT][hapmap]
rs57836066	0.84[ASN][1000 genomes]
rs62421394	0.84[ASN][1000 genomes]
rs6455367	1.00[JPT][hapmap]
rs6455370	1.00[JPT][hapmap]
rs6455371	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6900840	1.00[JPT][hapmap]
rs6902797	1.00[JPT][hapmap]
rs6902986	1.00[JPT][hapmap]
rs6906572	1.00[JPT][hapmap]
rs6906592	1.00[JPT][hapmap]
rs6910903	1.00[JPT][hapmap]
rs6911812	1.00[JPT][hapmap]
rs6911983	1.00[JPT][hapmap]
rs6913548	1.00[JPT][hapmap]
rs6915405	0.91[JPT][hapmap]
rs6916974	1.00[JPT][hapmap]
rs6917368	1.00[JPT][hapmap]
rs6918393	0.92[JPT][hapmap]
rs6922680	1.00[JPT][hapmap]
rs6925112	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6925839	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6926591	1.00[JPT][hapmap]
rs6930397	1.00[JPT][hapmap]
rs6931901	1.00[JPT][hapmap]
rs6933150	1.00[JPT][hapmap]
rs6933784	1.00[JPT][hapmap]
rs6939478	1.00[JPT][hapmap]
rs6939814	1.00[JPT][hapmap]
rs6940416	1.00[JPT][hapmap]
rs6941205	0.92[JPT][hapmap]
rs6942012	1.00[JPT][hapmap]
rs7341224	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7739098	0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7740873	1.00[JPT][hapmap]
rs7741265	1.00[JPT][hapmap]
rs7743819	1.00[JPT][hapmap]
rs7752409	1.00[JPT][hapmap]
rs7753355	1.00[JPT][hapmap]
rs7756652	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7757026	1.00[JPT][hapmap]
rs7759464	1.00[JPT][hapmap]
rs7765110	1.00[JPT][hapmap]
rs7766075	1.00[JPT][hapmap]
rs7767109	1.00[JPT][hapmap]
rs7769582	1.00[JPT][hapmap]
rs7775962	1.00[JPT][hapmap]
rs9283835	1.00[JPT][hapmap]
rs9294868	1.00[JPT][hapmap]
rs9294872	1.00[JPT][hapmap]
rs9294874	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9294876	1.00[JPT][hapmap]
rs9446245	1.00[JPT][hapmap]
rs9446248	1.00[JPT][hapmap]
rs9446267	1.00[JPT][hapmap]
rs9446271	0.82[AMR][1000 genomes]
rs9446274	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9446275	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9455092	1.00[JPT][hapmap]
rs9455104	1.00[JPT][hapmap]
rs9455105	1.00[JPT][hapmap]
rs9455113	1.00[JPT][hapmap]
rs9455121	1.00[JPT][hapmap]
rs9455130	1.00[JPT][hapmap]
rs9455132	1.00[JPT][hapmap]
rs9455133	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9455158	0.92[JPT][hapmap]
rs9455160	1.00[JPT][hapmap]
rs9455162	1.00[JPT][hapmap]
rs9455163	1.00[JPT][hapmap]
rs9455167	0.91[JPT][hapmap]
rs9455168	0.92[JPT][hapmap]
rs9455173	0.82[AMR][1000 genomes]
rs9455179	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9455180	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9455185	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9455186	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs998986	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932111	chr6:70736835-71633094	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv886142	chr6:70741209-71251421	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1027049	chr6:70961610-71561488	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv524328	chr6:70961833-71558805	Flanking Bivalent TSS/Enh Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv917312	chr6:70961903-71601688	Enhancers Genic enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	nsv886145	chr6:71119524-71317480	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
7	nsv886146	chr6:71219464-71317480	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13206086	C6orf57	cis	Thyroid	GTEx

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:71210600-71262000	Weak transcription	Fetal Thymus	thymus
2	chr6:71214000-71250600	Weak transcription	Right Ventricle	heart
3	chr6:71214000-71253000	Weak transcription	Colonic Mucosa	Colon
4	chr6:71214000-71253000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr6:71214000-71256600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr6:71214000-71276000	Weak transcription	Brain Angular Gyrus	brain
7	chr6:71214000-71276000	Weak transcription	Brain Germinal Matrix	brain
8	chr6:71214000-71276000	Weak transcription	Colon Smooth Muscle	Colon
9	chr6:71214400-71251000	Weak transcription	Brain Substantia Nigra	brain
10	chr6:71214400-71251800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr6:71214400-71257000	Weak transcription	Brain Anterior Caudate	brain
12	chr6:71214400-71262000	Weak transcription	Psoas Muscle	Psoas
13	chr6:71214600-71251200	Weak transcription	K562	blood
14	chr6:71214600-71276000	Weak transcription	A549	lung
15	chr6:71215000-71273000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr6:71216200-71262200	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr6:71219000-71258800	Weak transcription	Small Intestine	intestine
18	chr6:71228600-71276000	Weak transcription	Primary T cells from cord blood	blood
19	chr6:71229600-71276200	Weak transcription	Aorta	Aorta
20	chr6:71231200-71268000	Weak transcription	Brain Cingulate Gyrus	brain
21	chr6:71231800-71257200	Weak transcription	Fetal Heart	heart
22	chr6:71232800-71251200	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr6:71233400-71256800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr6:71234800-71250800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr6:71234800-71256600	Weak transcription	HepG2	liver
26	chr6:71235600-71258200	Weak transcription	Liver	Liver
27	chr6:71236400-71273200	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr6:71237000-71276200	Weak transcription	Left Ventricle	heart
29	chr6:71237600-71257400	Weak transcription	Osteobl	bone
30	chr6:71240200-71251600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr6:71240600-71254000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:71240800-71253800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr6:71240800-71256400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr6:71241600-71257400	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr6:71242000-71251000	Weak transcription	Primary hematopoietic stem cells	blood
36	chr6:71242800-71257400	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr6:71243400-71250600	Weak transcription	NH-A	brain
38	chr6:71243400-71250800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr6:71243400-71276200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr6:71243600-71259800	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr6:71244200-71253200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr6:71244600-71250000	Strong transcription	HUES64 Cell Line	embryonic stem cell
43	chr6:71245400-71251200	Weak transcription	Ovary	ovary
44	chr6:71245400-71254000	Weak transcription	Fetal Stomach	stomach
45	chr6:71245400-71257200	Weak transcription	Rectal Smooth Muscle	rectum
46	chr6:71245400-71258800	Weak transcription	Lung	lung
47	chr6:71245400-71261400	Weak transcription	Fetal Muscle Trunk	muscle
48	chr6:71245400-71270600	Weak transcription	Adipose Nuclei	Adipose
49	chr6:71245400-71276400	Weak transcription	Esophagus	oesophagus
50	chr6:71245400-71276400	Weak transcription	Gastric	stomach

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