Variant report

Variant	rs73839170
Chromosome Location	chr3:52765230-52765231
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	chr3:52738889..52741112-chr3:52764320..52766937,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000016864	Chromatin interaction
ENSG00000114902	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs73839120	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73839188	0.92[AFR][1000 genomes]
rs73839524	1.00[AMR][1000 genomes]
rs73839528	1.00[AMR][1000 genomes]
rs73839530	1.00[AMR][1000 genomes]
rs73839531	1.00[AMR][1000 genomes]
rs73839707	1.00[AMR][1000 genomes]
rs73839709	1.00[AMR][1000 genomes]
rs73839712	1.00[AMR][1000 genomes]
rs73839714	1.00[AMR][1000 genomes]
rs73839718	1.00[AMR][1000 genomes]
rs73839723	1.00[AMR][1000 genomes]
rs73841131	1.00[AMR][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	nsv984563	chr3:52516115-52867075	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv508219	chr3:52741193-52803899	Enhancers Flanking Active TSS Strong transcription Genic enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv834698	chr3:52749983-52928219	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52741400-52765600	Weak transcription	Aorta	Aorta
2	chr3:52741400-52766600	Weak transcription	Rectal Smooth Muscle	rectum
3	chr3:52741600-52765600	Weak transcription	Esophagus	oesophagus
4	chr3:52741600-52804000	Weak transcription	Psoas Muscle	Psoas
5	chr3:52742000-52765600	Weak transcription	Brain Cingulate Gyrus	brain
6	chr3:52742000-52766400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr3:52742000-52766400	Weak transcription	NHLF	lung
8	chr3:52742000-52766600	Weak transcription	Hela-S3	cervix
9	chr3:52742000-52766600	Weak transcription	NHEK	skin
10	chr3:52742200-52767200	Weak transcription	Fetal Brain Male	brain
11	chr3:52742200-52768800	Weak transcription	Colon Smooth Muscle	Colon
12	chr3:52742400-52771400	Weak transcription	K562	blood
13	chr3:52742400-52772800	Weak transcription	Pancreas	Pancrea
14	chr3:52742600-52766000	Weak transcription	HUVEC	blood vessel
15	chr3:52743000-52766600	Weak transcription	NH-A	brain
16	chr3:52743000-52766600	Weak transcription	NHDF-Ad	bronchial
17	chr3:52743200-52766600	Weak transcription	Osteobl	bone
18	chr3:52744000-52765400	Weak transcription	HMEC	breast
19	chr3:52744800-52767000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr3:52747000-52765400	Weak transcription	Spleen	Spleen
21	chr3:52747000-52765600	Weak transcription	Brain Anterior Caudate	brain
22	chr3:52747000-52766600	Weak transcription	Brain Hippocampus Middle	brain
23	chr3:52749000-52771600	Weak transcription	Colonic Mucosa	Colon
24	chr3:52749200-52766800	Weak transcription	Right Ventricle	heart
25	chr3:52749200-52767000	Weak transcription	Fetal Heart	heart
26	chr3:52749200-52767400	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr3:52749200-52779800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr3:52749400-52766600	Weak transcription	Gastric	stomach
29	chr3:52749400-52776200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr3:52750000-52765600	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr3:52750000-52765600	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr3:52750200-52765400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr3:52753400-52765400	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr3:52753400-52765600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr3:52753400-52765600	Weak transcription	Brain Substantia Nigra	brain
36	chr3:52753400-52765600	Weak transcription	Ovary	ovary
37	chr3:52753600-52765400	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr3:52754200-52766200	Weak transcription	Brain Germinal Matrix	brain
39	chr3:52755800-52765600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr3:52755800-52767200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr3:52756200-52767400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr3:52756200-52777400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr3:52756400-52765800	Weak transcription	Primary T helper cells fromperipheralblood	blood
44	chr3:52756600-52767200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
45	chr3:52757000-52765400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr3:52757200-52765600	Weak transcription	Lung	lung
47	chr3:52759600-52768000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr3:52761200-52770200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr3:52761400-52765600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr3:52761400-52766600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

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