Variant report

Variant	rs73420801
Chromosome Location	chr6:38252388-38252389
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38245020..38247639-chr6:38249479..38252433,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11964509	1.00[EUR][1000 genomes]
rs11967720	1.00[EUR][1000 genomes]
rs56783945	1.00[AMR][1000 genomes]
rs57211386	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58257452	1.00[EUR][1000 genomes]
rs58907208	1.00[AMR][1000 genomes]
rs60148639	1.00[AMR][1000 genomes]
rs60395126	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60662487	1.00[AMR][1000 genomes]
rs61097716	1.00[AMR][1000 genomes]
rs61104643	1.00[AMR][1000 genomes]
rs6936449	1.00[AMR][1000 genomes]
rs73420800	1.00[AMR][1000 genomes]
rs73422812	1.00[AMR][1000 genomes]
rs73422820	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73422823	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73422832	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73422841	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73422843	1.00[EUR][1000 genomes]
rs73422846	1.00[EUR][1000 genomes]
rs73422854	1.00[AMR][1000 genomes]
rs73422856	1.00[AMR][1000 genomes]
rs73422860	1.00[AMR][1000 genomes]
rs73422871	1.00[AMR][1000 genomes]
rs73422874	1.00[AMR][1000 genomes]
rs73422876	1.00[AMR][1000 genomes]
rs73422883	1.00[AMR][1000 genomes]
rs73422884	1.00[AMR][1000 genomes]
rs7748763	1.00[EUR][1000 genomes]
rs7763951	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv885818	chr6:38147745-38436317	Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv885820	chr6:38166511-38468887	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38208200-38255000	Weak transcription	Ovary	ovary
2	chr6:38223600-38256000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr6:38224400-38267600	Weak transcription	Primary T cells from cord blood	blood
4	chr6:38224600-38255200	Weak transcription	Primary B cells from cord blood	blood
5	chr6:38224800-38256400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr6:38225000-38255800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr6:38226400-38258000	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr6:38226600-38256600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr6:38226600-38257000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr6:38230200-38253400	Weak transcription	Primary B cells from peripheral blood	blood
11	chr6:38230800-38256000	Weak transcription	Right Atrium	heart
12	chr6:38230800-38257800	Weak transcription	Pancreas	Pancrea
13	chr6:38238200-38257000	Weak transcription	Aorta	Aorta
14	chr6:38238400-38255000	Weak transcription	Lung	lung
15	chr6:38238400-38258200	Weak transcription	Left Ventricle	heart
16	chr6:38238600-38258000	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr6:38239400-38257800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr6:38239400-38259200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr6:38239800-38257600	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr6:38240000-38257800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr6:38241600-38258200	Weak transcription	Rectal Smooth Muscle	rectum
22	chr6:38243400-38257200	Weak transcription	Liver	Liver
23	chr6:38245000-38253800	Weak transcription	Primary T helper cells fromperipheralblood	blood
24	chr6:38245800-38252400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr6:38246400-38252600	Weak transcription	Fetal Muscle Trunk	muscle
26	chr6:38246600-38252400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr6:38247200-38257800	Weak transcription	Fetal Kidney	kidney
28	chr6:38247400-38252400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr6:38248000-38255600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr6:38248400-38258400	Weak transcription	Colon Smooth Muscle	Colon
31	chr6:38248800-38257400	Weak transcription	Fetal Heart	heart
32	chr6:38249000-38253000	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr6:38249000-38256000	Weak transcription	Brain Cingulate Gyrus	brain
34	chr6:38249000-38256000	Weak transcription	Brain Substantia Nigra	brain
35	chr6:38249000-38257600	Weak transcription	Brain Anterior Caudate	brain
36	chr6:38249000-38258200	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr6:38249200-38257800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
38	chr6:38249200-38258000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr6:38249200-38258000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr6:38249200-38258400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr6:38249200-38275600	Weak transcription	Fetal Brain Male	brain
42	chr6:38249600-38255800	Weak transcription	Brain Hippocampus Middle	brain
43	chr6:38249600-38255800	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr6:38250400-38252400	Enhancers	Muscle Satellite Cultured Cells	--
45	chr6:38250400-38252400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr6:38250400-38252400	Enhancers	HUVEC	blood vessel
47	chr6:38250400-38252400	Enhancers	NHDF-Ad	bronchial
48	chr6:38250400-38253000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr6:38250600-38257600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr6:38250600-38258200	Weak transcription	HUES6 Cell Line	embryonic stem cell

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