Variant report

Variant	rs35518913
Chromosome Location	chr4:106998281-106998282
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 199 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:197)

rs_ID	r²[population]
rs10002288	0.99[ASN][1000 genomes]
rs10025052	0.99[ASN][1000 genomes]
rs10030019	1.00[ASN][1000 genomes]
rs10084928	1.00[ASN][1000 genomes]
rs10516532	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10516533	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11097912	1.00[ASN][1000 genomes]
rs11097914	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11097916	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11097917	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11097919	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11097924	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11097925	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11942153	0.99[ASN][1000 genomes]
rs12499891	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12500331	0.80[ASN][1000 genomes]
rs12500775	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12502764	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12503753	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12504704	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12504721	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12505689	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12506062	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12506658	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12507429	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12507867	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12507874	0.90[ASN][1000 genomes]
rs12508432	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12508552	1.00[ASN][1000 genomes]
rs12509366	1.00[ASN][1000 genomes]
rs12509640	0.91[ASN][1000 genomes]
rs12509865	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12510058	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12510966	1.00[ASN][1000 genomes]
rs12511305	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12512683	1.00[ASN][1000 genomes]
rs12512877	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12512903	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12512966	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12513317	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12639678	0.96[ASN][1000 genomes]
rs12639869	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12641015	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12641037	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12642059	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12642227	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12642900	1.00[ASN][1000 genomes]
rs12643397	1.00[ASN][1000 genomes]
rs12644259	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12644596	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12645255	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12645271	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12645698	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12645743	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12646263	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12646485	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12647078	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12649709	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12651360	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17036613	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17259572	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17273093	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17273445	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17274017	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17274248	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17333287	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17333732	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17333879	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17333899	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1988695	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2290607	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28391259	1.00[ASN][1000 genomes]
rs28507027	1.00[ASN][1000 genomes]
rs28765420	0.98[ASN][1000 genomes]
rs28787305	1.00[ASN][1000 genomes]
rs28814088	0.94[ASN][1000 genomes]
rs28822186	1.00[ASN][1000 genomes]
rs28866820	1.00[ASN][1000 genomes]
rs28868894	1.00[ASN][1000 genomes]
rs28875879	1.00[ASN][1000 genomes]
rs28897193	1.00[ASN][1000 genomes]
rs34193646	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34899289	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34961213	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3762945	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3762946	0.93[ASN][1000 genomes]
rs3762947	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3775090	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4323181	1.00[ASN][1000 genomes]
rs4337798	1.00[ASN][1000 genomes]
rs4337799	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4339284	1.00[ASN][1000 genomes]
rs4422480	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4429790	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4458525	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4466113	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4481295	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4521418	0.99[ASN][1000 genomes]
rs4607300	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4645291	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55633564	1.00[ASN][1000 genomes]
rs55634475	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55710349	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55833794	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56009469	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56135499	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56222430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56231393	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56260521	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56329826	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56333662	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56341229	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56775039	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56833325	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57246774	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59784613	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60538413	0.89[ASN][1000 genomes]
rs61256759	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61544154	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62321365	0.98[ASN][1000 genomes]
rs6533240	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6533243	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6533245	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6533246	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6810877	0.98[ASN][1000 genomes]
rs6814166	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6815014	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6816614	1.00[ASN][1000 genomes]
rs6816698	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6818197	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6818626	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6822692	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6823347	0.99[ASN][1000 genomes]
rs6824682	1.00[ASN][1000 genomes]
rs6827816	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6828362	1.00[ASN][1000 genomes]
rs6829795	1.00[ASN][1000 genomes]
rs6831665	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6835216	1.00[ASN][1000 genomes]
rs6838283	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6842919	0.97[ASN][1000 genomes]
rs6843331	0.97[ASN][1000 genomes]
rs6843870	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6844324	1.00[ASN][1000 genomes]
rs6846579	1.00[ASN][1000 genomes]
rs6849341	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6856408	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72489522	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72677306	1.00[ASN][1000 genomes]
rs72876575	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72876590	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72876592	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72876594	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72878537	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72893620	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7340989	0.93[ASN][1000 genomes]
rs73839422	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7655054	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7657962	0.97[ASN][1000 genomes]
rs7657975	1.00[ASN][1000 genomes]
rs7658011	0.99[ASN][1000 genomes]
rs7658701	1.00[ASN][1000 genomes]
rs7661499	0.93[ASN][1000 genomes]
rs7661565	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7662219	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7662291	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7662395	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7662592	1.00[ASN][1000 genomes]
rs7662806	1.00[ASN][1000 genomes]
rs7662836	1.00[ASN][1000 genomes]
rs7664032	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7664188	1.00[ASN][1000 genomes]
rs7665946	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7667719	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7668477	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7669087	1.00[ASN][1000 genomes]
rs7669212	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7671145	0.98[ASN][1000 genomes]
rs7673949	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7674381	0.89[ASN][1000 genomes]
rs7674466	0.94[ASN][1000 genomes]
rs7674931	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7675728	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7677248	0.99[ASN][1000 genomes]
rs7678229	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7678847	0.99[ASN][1000 genomes]
rs7681257	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7688008	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7688411	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7692069	0.95[ASN][1000 genomes]
rs7697996	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7698386	0.99[ASN][1000 genomes]
rs7699768	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9684658	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9685018	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9685464	1.00[ASN][1000 genomes]
rs9991091	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3414280	chr4:106987397-107017178	ZNF genes & repeats Weak transcription Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
2	esv3419151	chr4:106987397-107020894	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs35518913	SCYE1	Cis_1M	lymphoblastoid	RTeQTL
rs35518913	MGC16169	cis	multi-tissue	Pritchard
rs35518913	MGC16169	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106984000-107010200	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr4:106985000-107011400	Weak transcription	HepG2	liver
3	chr4:106986800-107002400	Weak transcription	Stomach Smooth Muscle	stomach
4	chr4:106993000-107008800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr4:106993200-107010000	Weak transcription	Left Ventricle	heart
6	chr4:106993400-107010400	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr4:106993600-106998400	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr4:106993600-107002400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr4:106993600-107010000	Weak transcription	Right Ventricle	heart
10	chr4:106993800-107010800	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr4:106994400-106998400	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr4:106994600-106998400	Weak transcription	Brain Cingulate Gyrus	brain
13	chr4:106994600-107015000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr4:106994800-106999000	Weak transcription	Brain Substantia Nigra	brain
15	chr4:106994800-106999400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
16	chr4:106994800-107011600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr4:106995000-106999000	ZNF genes & repeats	Primary T cells from cord blood	blood
18	chr4:106995000-107004200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr4:106995200-107010000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr4:106995200-107011400	Weak transcription	Colonic Mucosa	Colon
21	chr4:106995400-106998400	Weak transcription	Duodenum Mucosa	Duodenum
22	chr4:106995400-106998400	Weak transcription	Fetal Brain Male	brain
23	chr4:106995400-107004000	Weak transcription	Fetal Stomach	stomach
24	chr4:106995400-107004200	Weak transcription	Thymus	Thymus
25	chr4:106995400-107011000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr4:106995400-107011000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr4:106995600-107010400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr4:106995800-107000000	ZNF genes & repeats	Primary B cells from cord blood	blood
29	chr4:106996000-106998400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr4:106996000-107010800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr4:106996200-107003800	Weak transcription	Pancreas	Pancrea
32	chr4:106996400-106998400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
33	chr4:106997000-106998600	Strong transcription	Ovary	ovary
34	chr4:106997000-106999000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
35	chr4:106997000-107000200	ZNF genes & repeats	Liver	Liver
36	chr4:106997200-106998400	ZNF genes & repeats	Fetal Intestine Small	intestine
37	chr4:106997200-106998600	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
38	chr4:106997200-107000200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
39	chr4:106997200-107031000	Weak transcription	Psoas Muscle	Psoas
40	chr4:106997400-106999000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
41	chr4:106997400-106999000	ZNF genes & repeats	Fetal Lung	lung
42	chr4:106997400-107004000	Weak transcription	Gastric	stomach
43	chr4:106997600-106998800	ZNF genes & repeats	Primary B cells from peripheral blood	blood
44	chr4:106997600-106998800	ZNF genes & repeats	Fetal Intestine Large	intestine
45	chr4:106997600-106999400	ZNF genes & repeats	Fetal Muscle Trunk	muscle
46	chr4:106997800-106998600	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr4:106997800-106998800	ZNF genes & repeats	Brain Hippocampus Middle	brain
48	chr4:106998000-106998600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr4:106998000-106998600	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr4:106998000-106998600	ZNF genes & repeats	Primary T cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links