Variant report

Variant	rs10005355
Chromosome Location	chr4:110465472-110465473
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 126 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:122)

rs_ID	r²[population]
rs10000545	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10002595	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10155127	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10516558	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11098033	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11098035	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11929713	1.00[JPT][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11930655	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11933971	0.92[ASN][1000 genomes]
rs11934486	0.86[ASN][1000 genomes]
rs11935440	0.90[ASN][1000 genomes]
rs11935629	1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs11938593	0.90[ASN][1000 genomes]
rs11941344	0.92[ASN][1000 genomes]
rs11942140	0.86[ASN][1000 genomes]
rs11942291	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11942858	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11942928	0.90[ASN][1000 genomes]
rs11943384	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11943430	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11944375	0.90[ASN][1000 genomes]
rs11944427	0.90[ASN][1000 genomes]
rs11944659	0.86[ASN][1000 genomes]
rs12639832	0.86[ASN][1000 genomes]
rs12640049	0.86[ASN][1000 genomes]
rs12640161	0.94[ASN][1000 genomes]
rs12642304	1.00[ASN][1000 genomes]
rs12643055	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12643844	1.00[ASN][1000 genomes]
rs12644055	0.82[CHB][hapmap];0.90[ASN][1000 genomes]
rs12647695	0.90[ASN][1000 genomes]
rs12648138	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs12648965	1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[ASN][1000 genomes]
rs12650654	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12650873	0.90[ASN][1000 genomes]
rs13103034	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs13123618	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13125368	0.92[ASN][1000 genomes]
rs13128124	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13134239	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13141701	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13142698	0.85[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13143825	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs13145066	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1509314	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1509315	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs17040410	0.90[ASN][1000 genomes]
rs17040436	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17040439	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs17040461	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs17040488	1.00[ASN][1000 genomes]
rs17040510	0.86[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17585970	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs17619262	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs28521972	0.85[ASN][1000 genomes]
rs28681408	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34153531	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34224638	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34274964	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34377662	0.92[ASN][1000 genomes]
rs34441811	0.92[ASN][1000 genomes]
rs34482781	0.92[ASN][1000 genomes]
rs34636377	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34836476	0.92[ASN][1000 genomes]
rs35110951	1.00[ASN][1000 genomes]
rs35359830	0.92[ASN][1000 genomes]
rs35473144	0.96[ASN][1000 genomes]
rs35594044	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35762958	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35791246	0.92[ASN][1000 genomes]
rs35940980	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36009064	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs36115572	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3775962	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60957336	0.92[ASN][1000 genomes]
rs61004219	0.92[ASN][1000 genomes]
rs61242473	0.98[ASN][1000 genomes]
rs61439452	0.88[ASN][1000 genomes]
rs61553525	0.90[ASN][1000 genomes]
rs6533428	0.80[ASN][1000 genomes]
rs6533429	0.90[ASN][1000 genomes]
rs6533434	0.85[CEU][hapmap]
rs66642182	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs66667140	1.00[ASN][1000 genomes]
rs67473696	0.98[ASN][1000 genomes]
rs68041341	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6812469	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6815455	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs6817954	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6818911	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6823032	1.00[ASN][1000 genomes]
rs6827006	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6833753	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6835683	0.86[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6837199	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6841198	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6845371	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6848452	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6851517	0.90[ASN][1000 genomes]
rs6852037	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6856291	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6856446	1.00[ASN][1000 genomes]
rs71603033	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72896619	0.94[ASN][1000 genomes]
rs72896622	0.94[ASN][1000 genomes]
rs72896625	0.94[ASN][1000 genomes]
rs72896629	0.94[ASN][1000 genomes]
rs72896632	0.86[ASN][1000 genomes]
rs73838809	1.00[ASN][1000 genomes]
rs7436583	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7436745	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7440371	0.90[ASN][1000 genomes]
rs7440570	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7675602	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7679836	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7680296	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7687245	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9985632	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9985964	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs9994676	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9994985	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9999570	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461613	chr4:109922064-110593460	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv595129	chr4:109922064-110593460	Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	esv3349784	chr4:110348873-110723163	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv525385	chr4:110395146-110466413	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110393800-110469200	Weak transcription	Stomach Mucosa	stomach
2	chr4:110409400-110467800	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr4:110412400-110466200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr4:110412400-110470600	Strong transcription	Fetal Thymus	thymus
5	chr4:110420200-110466400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr4:110423400-110480800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr4:110424800-110468400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr4:110425200-110468000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr4:110433400-110465800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
10	chr4:110434800-110469600	Strong transcription	Rectal Mucosa Donor 29	rectum
11	chr4:110435000-110468400	Strong transcription	Liver	Liver
12	chr4:110436800-110468000	Strong transcription	HSMM	muscle
13	chr4:110445800-110467800	Strong transcription	Adipose Nuclei	Adipose
14	chr4:110446000-110465800	Strong transcription	Primary neutrophils fromperipheralblood	blood
15	chr4:110448800-110479600	Weak transcription	Small Intestine	intestine
16	chr4:110448800-110480000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr4:110449600-110469400	Weak transcription	Pancreas	Pancrea
18	chr4:110452000-110467000	Weak transcription	Spleen	Spleen
19	chr4:110452000-110470200	Weak transcription	Esophagus	oesophagus
20	chr4:110452400-110480800	Weak transcription	Right Ventricle	heart
21	chr4:110453400-110466000	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr4:110454000-110480600	Weak transcription	NHLF	lung
23	chr4:110454600-110480200	Weak transcription	A549	lung
24	chr4:110455000-110470800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
25	chr4:110455200-110466600	Weak transcription	K562	blood
26	chr4:110455400-110469400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr4:110455400-110469800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr4:110455600-110480600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr4:110456200-110467200	Weak transcription	Aorta	Aorta
30	chr4:110456200-110470800	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr4:110456400-110465800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr4:110456400-110466200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr4:110456400-110469000	Weak transcription	HMEC	breast
34	chr4:110456400-110469400	Weak transcription	Brain Angular Gyrus	brain
35	chr4:110456400-110472000	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr4:110456400-110480600	Weak transcription	Brain Substantia Nigra	brain
37	chr4:110456400-110481600	Weak transcription	Fetal Heart	heart
38	chr4:110456600-110465800	Weak transcription	Colon Smooth Muscle	Colon
39	chr4:110456600-110469600	Weak transcription	Lung	lung
40	chr4:110457400-110466000	Strong transcription	Osteobl	bone
41	chr4:110457400-110467200	Weak transcription	Brain Germinal Matrix	brain
42	chr4:110457400-110468400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr4:110457400-110480600	Weak transcription	Right Atrium	heart
44	chr4:110458200-110466400	Strong transcription	Primary T cells fromperipheralblood	blood
45	chr4:110458400-110466800	Strong transcription	NH-A	brain
46	chr4:110458400-110469000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr4:110458800-110469600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr4:110459000-110467400	Strong transcription	Placenta	Placenta
49	chr4:110459200-110465800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr4:110459200-110466200	Strong transcription	Fetal Lung	lung

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