Variant report

Variant	rs198571
Chromosome Location	chr13:49019735-49019736
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs12584784	0.80[ASN][1000 genomes]
rs1547660	0.88[ASN][1000 genomes]
rs171988	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs171990	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs174857	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1926595	0.88[ASN][1000 genomes]
rs1926597	0.88[ASN][1000 genomes]
rs198564	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs198568	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs198569	0.81[AMR][1000 genomes]
rs198574	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.82[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs198575	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs198576	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs198577	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs198606	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs198608	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs198609	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs198610	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs198614	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs198622	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs198623	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs198624	0.92[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs198627	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs198629	0.84[AFR][1000 genomes]
rs198630	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs198631	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2070752	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2274400	0.88[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap]
rs2804094	1.00[CEU][hapmap];0.90[JPT][hapmap];0.83[YRI][hapmap];0.96[EUR][1000 genomes]
rs2804095	1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2854342	1.00[ASW][hapmap];1.00[CEU][hapmap];0.84[CHD][hapmap];0.90[JPT][hapmap];0.93[LWK][hapmap];0.91[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.83[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs2854348	0.90[JPT][hapmap];0.95[YRI][hapmap];0.83[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs2854353	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2854357	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2854362	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3092888	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap]
rs3092898	0.93[ASN][1000 genomes]
rs3092899	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs3751380	0.89[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs398158	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs403390	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs406098	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4151434	0.90[JPT][hapmap]
rs4151442	1.00[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap]
rs4151448	1.00[CHB][hapmap];0.94[CHD][hapmap];0.90[JPT][hapmap]
rs4151452	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs4151456	0.86[CHB][hapmap];0.80[JPT][hapmap]
rs4151474	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs4151525	0.88[CHB][hapmap];0.90[JPT][hapmap]
rs4151601	0.88[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs425834	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs427686	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs449268	0.82[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap]
rs58854758	0.85[ASN][1000 genomes]
rs61074776	0.88[ASN][1000 genomes]
rs6561448	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6561457	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6561461	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.87[TSI][hapmap];0.88[ASN][1000 genomes]
rs6561465	1.00[CEU][hapmap]
rs7325962	0.86[ASW][hapmap];0.89[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7329039	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7329865	0.88[CHB][hapmap];0.90[JPT][hapmap]
rs73486867	0.88[ASN][1000 genomes]
rs73495016	1.00[ASN][1000 genomes]
rs7985825	0.88[ASN][1000 genomes]
rs7992129	0.88[ASN][1000 genomes]
rs7995216	0.89[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7996186	0.88[CHB][hapmap];0.90[JPT][hapmap]
rs7996402	0.88[ASN][1000 genomes]
rs7998781	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs8001241	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.88[ASN][1000 genomes]
rs8002565	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9316385	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9316396	0.87[TSI][hapmap]
rs9316401	0.88[ASN][1000 genomes]
rs9331965	0.88[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap]
rs9331973	0.88[CHB][hapmap];0.90[JPT][hapmap]
rs9332054	0.88[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs9332278	1.00[CEU][hapmap]
rs9591172	0.88[ASN][1000 genomes]
rs9591177	0.87[ASN][1000 genomes]
rs9591178	0.88[ASN][1000 genomes]
rs9595931	1.00[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832602	chr13:49003159-49167781	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:48990800-49030800	Weak transcription	Ovary	ovary
2	chr13:48991400-49030600	Weak transcription	Spleen	Spleen
3	chr13:48999000-49024400	Weak transcription	Fetal Muscle Leg	muscle
4	chr13:49001400-49022400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr13:49001400-49024600	Weak transcription	Fetal Intestine Small	intestine
6	chr13:49003600-49023200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr13:49006800-49020200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr13:49006800-49020400	Weak transcription	HSMMtube	muscle
9	chr13:49006800-49020800	Weak transcription	Hela-S3	cervix
10	chr13:49006800-49030400	Weak transcription	Brain Cingulate Gyrus	brain
11	chr13:49007000-49027600	Weak transcription	Primary T cells from cord blood	blood
12	chr13:49008000-49028600	Weak transcription	HepG2	liver
13	chr13:49008800-49030800	Weak transcription	Placenta	Placenta
14	chr13:49009000-49030600	Weak transcription	Gastric	stomach
15	chr13:49009000-49030600	Weak transcription	Lung	lung
16	chr13:49011200-49028800	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr13:49011400-49022800	Weak transcription	Primary hematopoietic stem cells	blood
18	chr13:49011800-49020400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr13:49011800-49023600	Weak transcription	Fetal Muscle Trunk	muscle
20	chr13:49012000-49019800	Weak transcription	HUVEC	blood vessel
21	chr13:49012000-49020200	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr13:49012000-49020200	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr13:49012000-49020400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr13:49012000-49020400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr13:49012000-49020400	Weak transcription	NHLF	lung
26	chr13:49012000-49020400	Weak transcription	Osteobl	bone
27	chr13:49012000-49020600	Weak transcription	HSMM	muscle
28	chr13:49012000-49020800	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr13:49012000-49022400	Weak transcription	Brain Anterior Caudate	brain
30	chr13:49012000-49022800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr13:49012000-49023400	Weak transcription	Small Intestine	intestine
32	chr13:49012000-49027400	Weak transcription	Left Ventricle	heart
33	chr13:49012000-49028800	Weak transcription	Pancreas	Pancrea
34	chr13:49012200-49020400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr13:49012200-49020400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr13:49012200-49020400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr13:49012200-49020400	Weak transcription	NHDF-Ad	bronchial
38	chr13:49012200-49022400	Weak transcription	Adipose Nuclei	Adipose
39	chr13:49012400-49020000	Weak transcription	Monocytes-CD14+_RO01746	blood
40	chr13:49012400-49024400	Weak transcription	Fetal Heart	heart
41	chr13:49014600-49020400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr13:49015200-49027400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr13:49016600-49020000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
44	chr13:49017400-49062200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr13:49017800-49020000	Strong transcription	Primary B cells from peripheral blood	blood
46	chr13:49017800-49021200	Enhancers	Primary T helper cells PMA-I stimulated	--
47	chr13:49017800-49021200	Enhancers	Primary T helper cells fromperipheralblood	blood
48	chr13:49018000-49020400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr13:49018000-49024000	Strong transcription	Dnd41	blood
50	chr13:49018000-49062400	Weak transcription	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links