Variant report

Variant	rs3095724
Chromosome Location	chr19:38208092-38208093
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	chr19:38207479..38209787-chr19:38374295..38376201,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10048511	0.83[ASN][1000 genomes]
rs11673023	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1291	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12974225	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12979640	0.82[ASN][1000 genomes]
rs171376	0.81[ASN][1000 genomes]
rs1974714	0.89[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2075284	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2287229	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs241932	0.85[ASN][1000 genomes]
rs241950	0.84[ASN][1000 genomes]
rs2909085	0.82[ASN][1000 genomes]
rs2909088	0.82[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs2909093	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2909098	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2909100	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2909102	0.82[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs2909105	0.82[ASN][1000 genomes]
rs2909109	0.81[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs2927746	0.80[ASN][1000 genomes]
rs2927747	0.81[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs2972430	0.81[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs2972434	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2972437	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2972438	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2972439	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2972445	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2972448	0.81[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs2972458	0.80[AFR][1000 genomes]
rs3095726	0.91[ASN][1000 genomes]
rs3112434	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56151076	0.81[ASN][1000 genomes]
rs6508742	0.83[ASN][1000 genomes]
rs8103633	0.90[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs8112706	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs856300	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs856304	0.84[ASN][1000 genomes]
rs9304569	0.83[ASN][1000 genomes]
rs968073	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[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	nsv579468	chr19:37977609-38293487	ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv833820	chr19:38190721-38414049	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38183200-38208800	Weak transcription	Fetal Heart	heart
2	chr19:38184400-38208800	Weak transcription	HepG2	liver
3	chr19:38188200-38209200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr19:38189400-38209200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr19:38190600-38209000	Weak transcription	Brain Substantia Nigra	brain
6	chr19:38190600-38209200	Weak transcription	HSMMtube	muscle
7	chr19:38190800-38209000	Weak transcription	Stomach Mucosa	stomach
8	chr19:38190800-38209200	Weak transcription	Fetal Thymus	thymus
9	chr19:38190800-38209200	Weak transcription	Psoas Muscle	Psoas
10	chr19:38191200-38209200	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr19:38191200-38209200	Weak transcription	Colon Smooth Muscle	Colon
12	chr19:38193800-38209000	Weak transcription	Hela-S3	cervix
13	chr19:38197600-38208800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr19:38198800-38208800	Weak transcription	Fetal Brain Male	brain
15	chr19:38198800-38209000	Weak transcription	Spleen	Spleen
16	chr19:38198800-38209200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr19:38198800-38209200	Weak transcription	Gastric	stomach
18	chr19:38198800-38209400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr19:38198800-38209800	Weak transcription	Esophagus	oesophagus
20	chr19:38199000-38209000	Weak transcription	Fetal Kidney	kidney
21	chr19:38199000-38209000	Weak transcription	Rectal Smooth Muscle	rectum
22	chr19:38199000-38209200	Weak transcription	Pancreas	Pancrea
23	chr19:38199000-38209200	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr19:38199000-38209400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr19:38199000-38209400	Weak transcription	HSMM	muscle
26	chr19:38199600-38209000	Weak transcription	Small Intestine	intestine
27	chr19:38200400-38209000	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr19:38200400-38209000	Weak transcription	Brain Anterior Caudate	brain
29	chr19:38200400-38209200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr19:38200400-38209200	Weak transcription	NHDF-Ad	bronchial
31	chr19:38200400-38209400	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr19:38200600-38209400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr19:38200800-38208800	Weak transcription	Fetal Brain Female	brain
34	chr19:38200800-38209000	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr19:38200800-38209200	Weak transcription	Brain Hippocampus Middle	brain
36	chr19:38200800-38209200	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr19:38201200-38209200	Weak transcription	Thymus	Thymus
38	chr19:38201400-38208800	Weak transcription	Brain Germinal Matrix	brain
39	chr19:38201400-38209200	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr19:38202000-38209200	Weak transcription	Colonic Mucosa	Colon
41	chr19:38202400-38209000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr19:38202400-38209200	Weak transcription	Stomach Smooth Muscle	stomach
43	chr19:38202400-38209200	Weak transcription	Osteobl	bone
44	chr19:38202600-38209000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr19:38202600-38209000	Weak transcription	Duodenum Mucosa	Duodenum
46	chr19:38202600-38209000	Weak transcription	Fetal Intestine Large	intestine
47	chr19:38202600-38209000	Weak transcription	Right Ventricle	heart
48	chr19:38202600-38209200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr19:38202600-38209200	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr19:38202600-38209200	Weak transcription	Left Ventricle	heart

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