Variant report

Variant	rs3806158
Chromosome Location	chr6:110427853-110427854
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs12660108	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12662027	0.93[ASN][1000 genomes]
rs12662099	0.88[CHB][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12662559	0.88[CHB][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.85[ASN][1000 genomes]
rs12664024	0.86[EUR][1000 genomes]
rs12664697	0.88[CHB][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.85[ASN][1000 genomes]
rs12665152	0.85[ASN][1000 genomes]
rs12665178	0.85[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12665650	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1350943	0.86[EUR][1000 genomes]
rs1350944	0.86[EUR][1000 genomes]
rs1381688	0.86[EUR][1000 genomes]
rs2002631	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2361500	1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.93[ASN][1000 genomes]
rs2885293	0.93[ASN][1000 genomes]
rs3828928	1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs41288574	0.87[ASN][1000 genomes]
rs41288576	0.85[ASN][1000 genomes]
rs57771959	0.84[ASN][1000 genomes]
rs58100980	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58965432	0.87[ASN][1000 genomes]
rs59181827	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60105161	0.87[ASN][1000 genomes]
rs61494781	0.85[ASN][1000 genomes]
rs6904509	0.87[ASN][1000 genomes]
rs6918158	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6922245	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6922536	0.86[EUR][1000 genomes]
rs6926993	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6927464	0.90[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6935544	1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.93[ASN][1000 genomes]
rs6937364	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6940347	1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6941101	0.87[ASN][1000 genomes]
rs73765657	0.86[EUR][1000 genomes]
rs73765660	0.86[EUR][1000 genomes]
rs73765665	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7752069	0.86[EUR][1000 genomes]
rs7770634	0.86[EUR][1000 genomes]
rs7771649	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7771909	0.93[ASN][1000 genomes]
rs9374151	0.86[EUR][1000 genomes]
rs9374153	0.86[EUR][1000 genomes]
rs9374154	0.86[EUR][1000 genomes]
rs9374155	0.86[EUR][1000 genomes]
rs9374157	0.86[EUR][1000 genomes]
rs9386874	0.81[EUR][1000 genomes]
rs9386877	0.86[EUR][1000 genomes]
rs9386879	0.86[EUR][1000 genomes]
rs9400361	0.86[EUR][1000 genomes]
rs9400362	1.00[EUR][1000 genomes]
rs9487324	0.88[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap]

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	nsv886535	chr6:110377006-110551463	Strong transcription Genic enhancers Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	esv2757188	chr6:110389926-110504680	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	esv2759462	chr6:110389926-110504680	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	esv1792799	chr6:110411065-110566597	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv886536	chr6:110426046-110502831	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:110417200-110438600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr6:110418200-110436000	Weak transcription	Fetal Brain Male	brain
3	chr6:110418800-110429000	Weak transcription	Fetal Muscle Leg	muscle
4	chr6:110418800-110437200	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr6:110419000-110428000	Weak transcription	HSMM	muscle
6	chr6:110419000-110431800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr6:110419000-110449600	Weak transcription	Brain Cingulate Gyrus	brain
8	chr6:110419000-110461800	Weak transcription	HSMMtube	muscle
9	chr6:110419200-110449600	Weak transcription	Brain Hippocampus Middle	brain
10	chr6:110419400-110430800	Weak transcription	Osteobl	bone
11	chr6:110419800-110429800	Strong transcription	Stomach Smooth Muscle	stomach
12	chr6:110419800-110436400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:110420000-110430000	Strong transcription	HUES64 Cell Line	embryonic stem cell
14	chr6:110420400-110431200	Weak transcription	Fetal Heart	heart
15	chr6:110420600-110435200	Weak transcription	Brain Anterior Caudate	brain
16	chr6:110421200-110430200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr6:110421200-110433400	Weak transcription	K562	blood
18	chr6:110421400-110430000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr6:110422800-110428200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr6:110423200-110429600	Weak transcription	NH-A	brain
21	chr6:110423200-110440800	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr6:110423200-110448400	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr6:110423400-110431400	Weak transcription	Fetal Thymus	thymus
24	chr6:110423400-110434000	Weak transcription	HMEC	breast
25	chr6:110423400-110437600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr6:110423400-110439000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr6:110423400-110445000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr6:110423400-110450000	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr6:110423400-110459000	Weak transcription	Fetal Stomach	stomach
30	chr6:110423400-110459200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr6:110423400-110459200	Weak transcription	Aorta	Aorta
32	chr6:110424200-110429800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr6:110424600-110429400	Weak transcription	Adipose Nuclei	Adipose
34	chr6:110424600-110435200	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr6:110424600-110437800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr6:110424800-110428600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr6:110424800-110429600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr6:110424800-110429600	Weak transcription	Primary hematopoietic stem cells	blood
39	chr6:110424800-110429600	Weak transcription	Fetal Muscle Trunk	muscle
40	chr6:110424800-110430200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr6:110424800-110443200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr6:110424800-110443200	Weak transcription	Ovary	ovary
43	chr6:110425000-110428000	Weak transcription	Hela-S3	cervix
44	chr6:110425000-110456400	Weak transcription	HUVEC	blood vessel
45	chr6:110425200-110428000	Strong transcription	Brain Germinal Matrix	brain
46	chr6:110425200-110428600	Weak transcription	Colon Smooth Muscle	Colon
47	chr6:110425400-110435600	Weak transcription	Brain Angular Gyrus	brain
48	chr6:110425400-110440600	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr6:110426000-110428200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
50	chr6:110426000-110437200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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