Variant report

Variant	rs808293
Chromosome Location	chr10:116527877-116527878
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:116526447..116528712-chr10:116580718..116582885,3	MCF-7	breast:
2	chr10:116510537..116513350-chr10:116526093..116528633,2	MCF-7	breast:
3	chr10:116469822..116472730-chr10:116527178..116529089,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM160B1-4	chr10:116527700-116528317	ucscGeneNc_uc001lca_1

Variant related genes	Relation type
ENSG00000151553	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11196894	1.00[ASN][1000 genomes]
rs217185	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs217186	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs217198	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2532819	1.00[ASN][1000 genomes]
rs67402998	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808252	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808257	1.00[ASN][1000 genomes]
rs808260	1.00[ASN][1000 genomes]
rs808261	1.00[ASN][1000 genomes]
rs808262	1.00[ASN][1000 genomes]
rs808277	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808278	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808284	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808292	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808297	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808300	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808304	1.00[ASN][1000 genomes]
rs808308	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808309	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808310	1.00[ASN][1000 genomes]
rs808311	1.00[ASN][1000 genomes]
rs808312	1.00[ASN][1000 genomes]
rs808315	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808317	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808318	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808319	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808320	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808324	1.00[ASN][1000 genomes]
rs808326	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808327	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808328	1.00[ASN][1000 genomes]
rs808329	1.00[ASN][1000 genomes]
rs808333	1.00[ASN][1000 genomes]
rs808334	1.00[ASN][1000 genomes]
rs808335	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808337	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808343	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs808345	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808354	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs808356	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949138	chr10:116311531-116874477	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1038050	chr10:116315109-116895719	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv533027	chr10:116344641-116856352	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv3435429	chr10:116394152-117006347	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	esv1814163	chr10:116519705-116582581	Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116525600-116528400	Active TSS	Right Atrium	heart
2	chr10:116526200-116528200	Active TSS	Fetal Intestine Small	intestine
3	chr10:116526200-116528600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
4	chr10:116526200-116528600	Active TSS	Right Ventricle	heart
5	chr10:116526600-116528200	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
6	chr10:116526600-116528400	Active TSS	Left Ventricle	heart
7	chr10:116526600-116528600	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
8	chr10:116526600-116528800	Bivalent/Poised TSS	Fetal Brain Female	brain
9	chr10:116526800-116528400	Active TSS	Aorta	Aorta
10	chr10:116526800-116528400	Active TSS	Brain Angular Gyrus	brain
11	chr10:116526800-116528400	Active TSS	Brain Anterior Caudate	brain
12	chr10:116526800-116528600	Active TSS	Breast Myoepithelial Primary Cells	Breast
13	chr10:116526800-116528600	Active TSS	Rectal Smooth Muscle	rectum
14	chr10:116526800-116528800	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
15	chr10:116527000-116528000	Flanking Bivalent TSS/Enh	Thymus	Thymus
16	chr10:116527000-116528200	Active TSS	H1 Cell Line	embryonic stem cell
17	chr10:116527000-116528400	Active TSS	Ovary	ovary
18	chr10:116527000-116528600	Active TSS	H9 Cell Line	embryonic stem cell
19	chr10:116527000-116528600	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr10:116527000-116528600	Active TSS	Pancreatic Islets	Pancreatic Islet
21	chr10:116527200-116528000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr10:116527200-116528000	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain
23	chr10:116527200-116528200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr10:116527200-116528200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr10:116527200-116528200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr10:116527200-116528200	Active TSS	HSMM	muscle
27	chr10:116527200-116528200	Active TSS	NHDF-Ad	bronchial
28	chr10:116527200-116528400	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr10:116527200-116528400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr10:116527200-116528400	Active TSS	HSMMtube	muscle
31	chr10:116527200-116528400	Bivalent/Poised TSS	NHLF	lung
32	chr10:116527200-116528600	Active TSS	iPS-15b Cell Line	embryonic stem cell
33	chr10:116527200-116528600	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
34	chr10:116527200-116528600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr10:116527200-116528600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr10:116527200-116528800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
37	chr10:116527400-116528000	Flanking Bivalent TSS/Enh	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr10:116527400-116528000	Bivalent/Poised TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr10:116527400-116528000	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr10:116527400-116528000	Flanking Bivalent TSS/Enh	Primary mononuclear cells fromperipheralblood	Blood
41	chr10:116527400-116528000	Active TSS	Fetal Intestine Large	intestine
42	chr10:116527400-116528200	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
43	chr10:116527400-116528200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr10:116527400-116528200	Active TSS	Pancreas	Pancrea
45	chr10:116527400-116528200	Active TSS	Rectal Mucosa Donor 29	rectum
46	chr10:116527400-116528200	Active TSS	Small Intestine	intestine
47	chr10:116527400-116528400	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr10:116527400-116528400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr10:116527400-116528400	Active TSS	Esophagus	oesophagus
50	chr10:116527400-116528400	Active TSS	Gastric	stomach

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