Variant report

Variant	rs2885692
Chromosome Location	chr3:67655845-67655846
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:67435199..67435789-chr3:67655564..67656111,2	MCF-7	breast:

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10510965	0.82[EUR][1000 genomes]
rs11127657	0.87[EUR][1000 genomes]
rs11924268	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17046546	0.86[LWK][hapmap]
rs17046587	0.83[EUR][1000 genomes]
rs17046684	0.86[AFR][1000 genomes]
rs17046689	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2076913	0.92[EUR][1000 genomes]
rs2363091	0.87[EUR][1000 genomes]
rs4371532	1.00[CEU][hapmap]
rs55662797	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55706427	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55780245	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55811928	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55871518	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55933747	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56149443	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56162614	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56291937	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56317125	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56341400	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56369665	0.83[EUR][1000 genomes]
rs56411806	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57450793	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58637570	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59742261	0.87[EUR][1000 genomes]
rs60283689	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60954711	0.83[EUR][1000 genomes]
rs6765734	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767025	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6798438	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6806897	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6810139	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72929333	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72929346	0.86[AFR][1000 genomes]
rs9683084	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9809720	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9824641	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9830311	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9871141	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9882327	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9882828	0.82[EUR][1000 genomes];0.95[ASN][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	nsv470638	chr3:67367341-67814738	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv460700	chr3:67393629-67712970	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats 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	10 gene(s)	inside rSNPs	diseases
3	nsv590560	chr3:67393629-67712970	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv590561	chr3:67548852-67690626	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv3359258	chr3:67589615-67828274	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv876922	chr3:67635506-67755257	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:67579400-67657600	Weak transcription	Pancreas	Pancrea
2	chr3:67601800-67673000	Weak transcription	Fetal Heart	heart
3	chr3:67602200-67656000	Weak transcription	Fetal Muscle Trunk	muscle
4	chr3:67612400-67697200	Weak transcription	Hela-S3	cervix
5	chr3:67614000-67658600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr3:67621200-67657600	Weak transcription	Fetal Stomach	stomach
7	chr3:67621800-67658000	Weak transcription	Thymus	Thymus
8	chr3:67622200-67657400	Weak transcription	Brain Substantia Nigra	brain
9	chr3:67624800-67658200	Weak transcription	Fetal Intestine Small	intestine
10	chr3:67629200-67675000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr3:67629400-67658000	Weak transcription	Right Ventricle	heart
12	chr3:67631400-67700200	Weak transcription	K562	blood
13	chr3:67631800-67664600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr3:67638000-67657200	Weak transcription	Fetal Muscle Leg	muscle
15	chr3:67638000-67657600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:67639000-67662000	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr3:67639200-67658600	Weak transcription	Colonic Mucosa	Colon
18	chr3:67640200-67656000	Weak transcription	Left Ventricle	heart
19	chr3:67640200-67656200	Weak transcription	Lung	lung
20	chr3:67640200-67678000	Weak transcription	Small Intestine	intestine
21	chr3:67640400-67658600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr3:67640800-67657200	Weak transcription	Stomach Smooth Muscle	stomach
23	chr3:67642800-67658400	Weak transcription	HSMMtube	muscle
24	chr3:67643000-67656000	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr3:67644600-67657400	Weak transcription	Spleen	Spleen
26	chr3:67644600-67658600	Weak transcription	Esophagus	oesophagus
27	chr3:67645000-67656000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr3:67645400-67657600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
29	chr3:67646200-67667400	Weak transcription	Psoas Muscle	Psoas
30	chr3:67647600-67657200	Weak transcription	Fetal Thymus	thymus
31	chr3:67647600-67658800	Weak transcription	HepG2	liver
32	chr3:67648400-67657600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
33	chr3:67648800-67657200	Enhancers	Primary T helper naive cells from peripheral blood	blood
34	chr3:67649200-67656600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
35	chr3:67649400-67658000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr3:67649800-67656400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr3:67650000-67656200	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr3:67650000-67658200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr3:67650600-67656600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
40	chr3:67651200-67656400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr3:67651200-67658000	Weak transcription	Brain Anterior Caudate	brain
42	chr3:67651200-67664800	Weak transcription	Colon Smooth Muscle	Colon
43	chr3:67651400-67657600	Weak transcription	Aorta	Aorta
44	chr3:67652400-67656200	Weak transcription	Ovary	ovary
45	chr3:67652400-67656400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr3:67652600-67656000	Weak transcription	NHEK	skin
47	chr3:67653200-67657600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr3:67653400-67656200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr3:67653400-67658000	Weak transcription	Brain Inferior Temporal Lobe	brain
50	chr3:67653400-67658400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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