Variant report

Variant	rs57366942
Chromosome Location	chr3:113190164-113190165
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10511325	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11917149	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11917288	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11919330	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11920725	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11922838	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11923128	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11924109	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11926687	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1463639	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1513288	0.81[EUR][1000 genomes]
rs16845109	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16860962	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861014	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861023	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861025	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861032	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861045	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861077	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861109	0.86[EUR][1000 genomes]
rs17256551	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17256752	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17322613	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1906141	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1989359	0.86[EUR][1000 genomes]
rs2129431	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2129432	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2291412	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2306068	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2306070	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28472841	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35758075	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35812463	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56685963	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56772417	0.82[ASN][1000 genomes]
rs57115529	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57164268	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58905600	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58988763	0.82[ASN][1000 genomes]
rs59271111	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59493419	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59673391	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60940543	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61065093	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6438150	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6438151	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6783691	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7610552	0.91[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	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1013506	chr3:112890608-113680951	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv1004000	chr3:113116778-113513899	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:113146000-113191000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr3:113160400-113191200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr3:113160400-113192800	Weak transcription	Stomach Mucosa	stomach
4	chr3:113160600-113190600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:113160600-113203800	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr3:113160800-113203800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:113160800-113203800	Weak transcription	Aorta	Aorta
8	chr3:113160800-113224800	Weak transcription	Placenta	Placenta
9	chr3:113160800-113232600	Weak transcription	Right Ventricle	heart
10	chr3:113161000-113190800	Weak transcription	K562	blood
11	chr3:113161400-113192200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:113166600-113203800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr3:113169800-113191600	Weak transcription	Fetal Brain Male	brain
14	chr3:113172600-113203800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr3:113172800-113232800	Weak transcription	HSMMtube	muscle
16	chr3:113173800-113190200	Weak transcription	Fetal Heart	heart
17	chr3:113174600-113190200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr3:113175000-113190600	Weak transcription	Brain Germinal Matrix	brain
19	chr3:113176400-113233200	Weak transcription	Gastric	stomach
20	chr3:113177400-113225800	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr3:113177600-113224400	Weak transcription	Spleen	Spleen
22	chr3:113179600-113191200	Weak transcription	Brain Angular Gyrus	brain
23	chr3:113179600-113192200	Weak transcription	Brain Cingulate Gyrus	brain
24	chr3:113179600-113192600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr3:113179600-113204000	Weak transcription	Fetal Muscle Trunk	muscle
26	chr3:113179600-113215200	Weak transcription	HMEC	breast
27	chr3:113179600-113217200	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr3:113179600-113232400	Weak transcription	Rectal Smooth Muscle	rectum
29	chr3:113179600-113232800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr3:113182000-113191400	Weak transcription	Fetal Muscle Leg	muscle
31	chr3:113182000-113203800	Weak transcription	Esophagus	oesophagus
32	chr3:113182000-113203800	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr3:113184000-113233200	Weak transcription	Pancreas	Pancrea
34	chr3:113184400-113190400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr3:113184800-113204800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr3:113185600-113190400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr3:113186400-113190400	Strong transcription	Rectal Mucosa Donor 29	rectum
38	chr3:113186800-113190400	Strong transcription	Primary T cells from cord blood	blood
39	chr3:113187200-113203800	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr3:113187200-113203800	Weak transcription	Ovary	ovary
41	chr3:113187200-113207200	Weak transcription	Thymus	Thymus
42	chr3:113187200-113224400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr3:113187400-113203800	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr3:113187400-113203800	Weak transcription	Hela-S3	cervix
45	chr3:113187800-113190200	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr3:113187800-113190600	Weak transcription	Lung	lung
47	chr3:113187800-113190800	Weak transcription	Primary monocytes fromperipheralblood	blood
48	chr3:113187800-113191400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr3:113187800-113191400	Weak transcription	Fetal Intestine Small	intestine
50	chr3:113187800-113193400	Weak transcription	Primary T cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links