Variant report

Variant	rs59872392
Chromosome Location	chr6:2882659-2882660
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs11168550	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11168584	0.87[AMR][1000 genomes]
rs11168601	0.85[AMR][1000 genomes]
rs11608260	0.87[AMR][1000 genomes]
rs11612896	0.87[AMR][1000 genomes]
rs11829869	0.87[AMR][1000 genomes]
rs11830068	0.82[AMR][1000 genomes]
rs11830262	0.87[AMR][1000 genomes]
rs11832205	0.82[AMR][1000 genomes]
rs11832311	0.87[AMR][1000 genomes]
rs11833650	0.87[AMR][1000 genomes]
rs11834790	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11834979	0.87[AMR][1000 genomes]
rs11836243	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11836257	0.87[AMR][1000 genomes]
rs11837374	0.87[AMR][1000 genomes]
rs12424940	0.87[AMR][1000 genomes]
rs17123011	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17123105	0.87[AMR][1000 genomes]
rs17123106	0.87[AMR][1000 genomes]
rs17123108	0.87[AMR][1000 genomes]
rs2068293	0.87[AMR][1000 genomes]
rs2731098	0.83[AMR][1000 genomes]
rs34400124	0.87[AMR][1000 genomes]
rs4146339	0.90[AMR][1000 genomes]
rs4265629	0.87[AMR][1000 genomes]
rs4331150	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4332560	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4344535	0.87[AMR][1000 genomes]
rs4500527	0.87[AMR][1000 genomes]
rs4519134	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4592463	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4620769	0.87[AMR][1000 genomes]
rs56796388	0.87[AMR][1000 genomes]
rs60346212	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72644850	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72644851	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72644852	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72644853	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72644858	0.87[AMR][1000 genomes]
rs72644859	0.87[AMR][1000 genomes]
rs72644862	0.87[AMR][1000 genomes]
rs72644863	0.87[AMR][1000 genomes]
rs72644864	0.87[AMR][1000 genomes]
rs72644865	0.87[AMR][1000 genomes]
rs7973559	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498004	chr6:2380300-3313587	Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	163 gene(s)	inside rSNPs	diseases
2	esv2830387	chr6:2733370-3154133	Strong transcription Flanking Active TSS Enhancers Genic enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	128 gene(s)	inside rSNPs	diseases
3	nsv830575	chr6:2847610-3035916	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:2877000-2890200	Weak transcription	Aorta	Aorta
2	chr6:2877200-2889200	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr6:2877400-2899400	Weak transcription	Fetal Heart	heart
4	chr6:2877600-2884000	Weak transcription	Pancreas	Pancrea
5	chr6:2877600-2889400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr6:2877600-2890200	Weak transcription	Brain Angular Gyrus	brain
7	chr6:2877600-2890200	Weak transcription	Fetal Lung	lung
8	chr6:2877600-2893800	Weak transcription	Fetal Kidney	kidney
9	chr6:2877800-2890200	Weak transcription	Brain Cingulate Gyrus	brain
10	chr6:2878000-2889200	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr6:2878000-2900000	Weak transcription	Small Intestine	intestine
12	chr6:2878200-2888800	Weak transcription	Brain Anterior Caudate	brain
13	chr6:2878200-2888800	Weak transcription	Left Ventricle	heart
14	chr6:2878200-2890200	Weak transcription	Right Ventricle	heart
15	chr6:2878200-2891800	Weak transcription	Esophagus	oesophagus
16	chr6:2878200-2892000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr6:2878200-2900400	Weak transcription	Right Atrium	heart
18	chr6:2878400-2883000	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr6:2878400-2888400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:2878400-2889000	Weak transcription	Liver	Liver
21	chr6:2878400-2889400	Weak transcription	Stomach Smooth Muscle	stomach
22	chr6:2878400-2889800	Weak transcription	Fetal Intestine Large	intestine
23	chr6:2878400-2890000	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr6:2878400-2890000	Weak transcription	Thymus	Thymus
25	chr6:2878400-2890200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr6:2878400-2890200	Weak transcription	Fetal Intestine Small	intestine
27	chr6:2878400-2890200	Weak transcription	Fetal Stomach	stomach
28	chr6:2878400-2894000	Weak transcription	Colon Smooth Muscle	Colon
29	chr6:2878600-2883400	Weak transcription	HUES64 Cell Line	embryonic stem cell
30	chr6:2878600-2884000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr6:2878600-2884000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr6:2878600-2884400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr6:2878600-2889000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr6:2878600-2889200	Weak transcription	Adipose Nuclei	Adipose
35	chr6:2878600-2889400	Weak transcription	Brain Substantia Nigra	brain
36	chr6:2878600-2889400	Weak transcription	Spleen	Spleen
37	chr6:2878600-2890200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr6:2878600-2890200	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr6:2878600-2894400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr6:2878800-2888800	Weak transcription	Placenta	Placenta
41	chr6:2878800-2889200	Weak transcription	A549	lung
42	chr6:2878800-2889200	Weak transcription	HUVEC	blood vessel
43	chr6:2879200-2886200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr6:2879600-2886000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr6:2881800-2884200	Weak transcription	Primary hematopoietic stem cells	blood
46	chr6:2882000-2883800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr6:2882000-2884000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr6:2882000-2884600	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr6:2882000-2885800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr6:2882000-2886200	Weak transcription	Primary T cells fromperipheralblood	blood

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