Variant report

Variant	rs6481498
Chromosome Location	chr10:28349419-28349420
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10508729	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10508730	1.00[CEU][hapmap];0.85[ASN][1000 genomes]
rs11006804	0.88[ASN][1000 genomes]
rs11006808	0.83[ASN][1000 genomes]
rs11006811	0.92[ASN][1000 genomes]
rs11006874	1.00[CEU][hapmap]
rs12241297	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12244891	0.97[ASN][1000 genomes]
rs12246891	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12249305	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12255657	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12266822	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12268684	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12268764	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12412297	0.85[ASN][1000 genomes]
rs17831032	1.00[CEU][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs17831062	1.00[CEU][hapmap];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1937806	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2253165	0.90[ASN][1000 genomes]
rs2368290	0.94[ASN][1000 genomes]
rs3780856	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3780857	0.97[ASN][1000 genomes]
rs3780858	0.97[ASN][1000 genomes]
rs3802518	0.97[ASN][1000 genomes]
rs3802522	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs57575764	0.82[ASN][1000 genomes]
rs58270577	0.85[ASN][1000 genomes]
rs60563943	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73606064	0.85[ASN][1000 genomes]
rs73606068	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73606069	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs74127187	0.88[ASN][1000 genomes]
rs7903206	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs7919932	0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs7921547	0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv831815	chr10:28235661-28407533	Strong transcription Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv1052182	chr10:28259142-28361830	Strong transcription Weak transcription ZNF genes & repeats Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1042524	chr10:28290149-28506812	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
5	nsv831816	chr10:28304698-28493635	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv894988	chr10:28337570-28410989	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
7	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
8	nsv466855	chr10:28341783-28400835	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
9	nsv550284	chr10:28341783-28400835	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28341200-28350000	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr10:28341200-28377600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr10:28341800-28349800	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr10:28342600-28350000	Strong transcription	Primary T helper cells fromperipheralblood	blood
5	chr10:28344000-28355600	Weak transcription	Adipose Nuclei	Adipose
6	chr10:28344600-28364400	Weak transcription	Fetal Heart	heart
7	chr10:28345000-28354000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr10:28345600-28349600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr10:28346200-28375400	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr10:28346400-28350200	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr10:28346600-28355600	Weak transcription	HSMMtube	muscle
12	chr10:28346600-28364400	Weak transcription	HepG2	liver
13	chr10:28347000-28349600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr10:28347000-28353600	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr10:28347000-28355600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr10:28347000-28355600	Weak transcription	Primary hematopoietic stem cells	blood
17	chr10:28347000-28355600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr10:28347000-28361200	Weak transcription	Lung	lung
19	chr10:28347000-28363800	Weak transcription	Fetal Stomach	stomach
20	chr10:28347000-28364000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr10:28347000-28364000	Weak transcription	Pancreas	Pancrea
22	chr10:28347000-28364200	Weak transcription	Esophagus	oesophagus
23	chr10:28347000-28364600	Weak transcription	Duodenum Mucosa	Duodenum
24	chr10:28347000-28375200	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr10:28347000-28380400	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr10:28347000-28381000	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr10:28347000-28412200	Weak transcription	Left Ventricle	heart
28	chr10:28347000-28414600	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr10:28347200-28355400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr10:28347200-28364000	Weak transcription	Stomach Smooth Muscle	stomach
31	chr10:28347400-28364200	Weak transcription	Fetal Intestine Large	intestine
32	chr10:28347400-28374600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr10:28347400-28377000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr10:28347400-28377200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr10:28347600-28355400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr10:28347600-28356400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr10:28347600-28364200	Weak transcription	Primary B cells from cord blood	blood
38	chr10:28348000-28381200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr10:28348200-28357800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr10:28348200-28364200	Weak transcription	Fetal Intestine Small	intestine
41	chr10:28348200-28365200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
42	chr10:28348400-28349600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr10:28348400-28355800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr10:28348400-28358800	Weak transcription	Primary T helper cells PMA-I stimulated	--
45	chr10:28348600-28349600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr10:28348600-28349600	Enhancers	Osteobl	bone
47	chr10:28348600-28350000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr10:28349000-28355800	Weak transcription	Primary neutrophils fromperipheralblood	blood
49	chr10:28349200-28349600	Enhancers	HSMM	muscle
50	chr10:28349200-28349800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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