Variant report

Variant	rs35803417
Chromosome Location	chr3:56640344-56640345
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs13060656	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13068670	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13072654	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13074639	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13080003	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13086565	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13088166	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13089169	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13089332	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13090343	0.89[ASN][1000 genomes]
rs13095165	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17825529	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1826119	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34097767	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34171578	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34284682	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34349699	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34480364	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34720351	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34869541	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs34885435	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34911835	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34953718	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs35070694	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35286628	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35418695	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35564119	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35677810	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35689307	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35728519	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35785755	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35940731	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35995233	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36029237	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36064180	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36131262	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3732506	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4060982	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4538344	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4635676	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6807338	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71309961	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs71309962	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs71309963	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs71309964	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71309965	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71309970	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71309972	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71309973	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71309975	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71621834	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7431634	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv876817	chr3:56517253-56649282	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv460557	chr3:56594735-56661320	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv590362	chr3:56594735-56661320	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56592400-56644800	Weak transcription	Small Intestine	intestine
2	chr3:56592800-56644600	Weak transcription	Fetal Heart	heart
3	chr3:56603200-56650400	Weak transcription	K562	blood
4	chr3:56606200-56650200	Weak transcription	Colonic Mucosa	Colon
5	chr3:56607800-56650200	Weak transcription	Psoas Muscle	Psoas
6	chr3:56625200-56650400	Weak transcription	NHEK	skin
7	chr3:56625200-56653400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:56626400-56656200	Weak transcription	Stomach Mucosa	stomach
9	chr3:56628600-56649600	Weak transcription	HepG2	liver
10	chr3:56629000-56647400	Weak transcription	HUVEC	blood vessel
11	chr3:56629000-56648000	Weak transcription	NH-A	brain
12	chr3:56629600-56648200	Weak transcription	NHDF-Ad	bronchial
13	chr3:56630000-56654400	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr3:56630600-56645800	Weak transcription	HSMM	muscle
15	chr3:56630800-56645600	Weak transcription	Hela-S3	cervix
16	chr3:56631400-56641400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr3:56631600-56642800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr3:56632400-56644800	Weak transcription	A549	lung
19	chr3:56633400-56641400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr3:56633600-56641400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr3:56633800-56647800	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr3:56634000-56651400	Weak transcription	Fetal Brain Male	brain
23	chr3:56637000-56640800	Strong transcription	Primary T helper cells PMA-I stimulated	--
24	chr3:56637200-56640800	Strong transcription	Primary T helper cells fromperipheralblood	blood
25	chr3:56637400-56641000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr3:56637800-56644200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr3:56638000-56640800	ZNF genes & repeats	Fetal Brain Female	brain
28	chr3:56638400-56640800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr3:56638600-56640800	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr3:56638600-56641000	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr3:56638600-56641800	Strong transcription	Primary T cells from cord blood	blood
32	chr3:56638600-56641800	Strong transcription	Brain Hippocampus Middle	brain
33	chr3:56638800-56640600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr3:56638800-56640600	Strong transcription	Primary neutrophils fromperipheralblood	blood
35	chr3:56638800-56640600	Strong transcription	Skeletal Muscle Female	skeletal muscle
36	chr3:56638800-56640800	Strong transcription	Primary B cells from cord blood	blood
37	chr3:56638800-56640800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
38	chr3:56638800-56640800	Strong transcription	Liver	Liver
39	chr3:56638800-56641200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr3:56639000-56640600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr3:56639000-56640800	Strong transcription	Adipose Nuclei	Adipose
42	chr3:56639000-56640800	Strong transcription	Pancreatic Islets	Pancreatic Islet
43	chr3:56639000-56641200	Strong transcription	Stomach Smooth Muscle	stomach
44	chr3:56639200-56640600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
45	chr3:56639400-56640600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
46	chr3:56639400-56640600	Strong transcription	Rectal Mucosa Donor 31	rectum
47	chr3:56639400-56640800	ZNF genes & repeats	Lung	lung
48	chr3:56639400-56640800	Strong transcription	Spleen	Spleen
49	chr3:56639400-56641000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr3:56639400-56641000	Strong transcription	Fetal Lung	lung

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