Variant report

Variant	rs13161885
Chromosome Location	chr5:93071242-93071243
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 108 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs10036024	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];0.82[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10036891	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10038424	0.83[EUR][1000 genomes]
rs10038828	1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10038831	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10041792	1.00[JPT][hapmap]
rs10045836	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10050364	1.00[JPT][hapmap]
rs10051878	0.82[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10056879	1.00[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs10057664	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs10060331	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs10061377	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10064368	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs10066431	0.87[EUR][1000 genomes]
rs10067541	1.00[JPT][hapmap]
rs10071040	1.00[JPT][hapmap]
rs10075217	0.93[CEU][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10079708	1.00[CEU][hapmap];0.88[JPT][hapmap]
rs10214278	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs1026279	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs1031424	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1038686	0.80[CEU][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs1046217	0.86[JPT][hapmap]
rs10476520	1.00[JPT][hapmap]
rs10476590	1.00[CEU][hapmap];0.86[JPT][hapmap]
rs10514376	0.86[JPT][hapmap]
rs11135397	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs12054831	1.00[JPT][hapmap]
rs12153021	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12188163	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap]
rs12653528	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs13153987	0.86[EUR][1000 genomes]
rs13154000	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13154650	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13155452	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13156202	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13164315	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13165400	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13171131	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap]
rs13182631	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13357713	0.93[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1349711	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs1453003	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs1470150	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs167570	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17083278	0.86[JPT][hapmap]
rs17083297	0.80[CEU][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs17083377	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs17312456	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17314074	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17314762	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap]
rs17314797	1.00[CEU][hapmap];0.88[JPT][hapmap]
rs17314825	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap]
rs17372057	1.00[CEU][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17372615	0.86[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.96[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17372649	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17372725	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17374166	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap]
rs17374627	1.00[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs1844343	0.86[JPT][hapmap]
rs1901736	1.00[JPT][hapmap]
rs1982439	1.00[JPT][hapmap]
rs2045019	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs2045020	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs2045021	1.00[JPT][hapmap]
rs2084916	1.00[JPT][hapmap]
rs28418572	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28534784	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2924374	0.85[CHD][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs34673483	0.82[ASN][1000 genomes]
rs34891708	0.87[EUR][1000 genomes]
rs35107028	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs36042718	0.87[EUR][1000 genomes]
rs3776601	0.86[JPT][hapmap]
rs6556829	0.86[JPT][hapmap]
rs6556834	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs6556838	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs6556839	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs66564678	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs67914792	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6859757	1.00[CEU][hapmap];0.85[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs6865441	1.00[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs6874766	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.81[EUR][1000 genomes]
rs6877030	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs6877616	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs6879620	1.00[JPT][hapmap]
rs6881815	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs6884138	0.86[JPT][hapmap]
rs6890998	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs6892055	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6895356	1.00[JPT][hapmap]
rs6898507	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs6898842	0.81[EUR][1000 genomes]
rs72786647	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72786662	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7702348	1.00[JPT][hapmap]
rs7702649	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs7712388	0.86[JPT][hapmap]
rs7713956	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs7715562	1.00[CEU][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap]
rs7717718	0.80[CEU][hapmap];1.00[JPT][hapmap]
rs7721168	0.86[JPT][hapmap]
rs7736624	0.86[JPT][hapmap]
rs7736892	1.00[JPT][hapmap]
rs896729	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs9314086	0.85[CHD][hapmap];1.00[JPT][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	nsv532196	chr5:92933949-93573527	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs13161885	TMEM163	trans	lymphoblastoid	seeQTL
rs13161885	MAGOHB	trans	cerebellum	SCAN

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:93038400-93076200	Weak transcription	Ovary	ovary
2	chr5:93040600-93088600	Weak transcription	Aorta	Aorta
3	chr5:93043000-93076400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr5:93045000-93073200	Weak transcription	Primary B cells from cord blood	blood
5	chr5:93057400-93080600	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr5:93059600-93071400	Weak transcription	Primary hematopoietic stem cells	blood
7	chr5:93060800-93076200	Weak transcription	Left Ventricle	heart
8	chr5:93065200-93075000	Weak transcription	Psoas Muscle	Psoas
9	chr5:93065200-93078400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr5:93066000-93087400	Weak transcription	Dnd41	blood
11	chr5:93066400-93076400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr5:93066400-93083400	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr5:93067600-93072200	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr5:93067800-93073400	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr5:93068000-93075200	Weak transcription	Fetal Lung	lung
16	chr5:93068000-93076200	Weak transcription	Fetal Intestine Small	intestine
17	chr5:93068000-93076400	Weak transcription	Pancreas	Pancrea
18	chr5:93068200-93078000	Weak transcription	Primary neutrophils fromperipheralblood	blood
19	chr5:93069800-93073200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr5:93069800-93074400	Weak transcription	Primary B cells from peripheral blood	blood
21	chr5:93069800-93076200	Weak transcription	Gastric	stomach
22	chr5:93069800-93076400	Weak transcription	Adipose Nuclei	Adipose
23	chr5:93070000-93080400	Weak transcription	Stomach Smooth Muscle	stomach
24	chr5:93070000-93108200	Weak transcription	Thymus	Thymus
25	chr5:93070400-93080400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr5:93070400-93087400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr5:93070400-93108200	Weak transcription	Liver	Liver
28	chr5:93070800-93071600	Enhancers	HUVEC	blood vessel
29	chr5:93070800-93071800	Enhancers	Muscle Satellite Cultured Cells	--
30	chr5:93070800-93072000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr5:93071000-93071400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr5:93071000-93071600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr5:93071000-93071800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr5:93071000-93071800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
35	chr5:93071000-93071800	Strong transcription	Primary T cells from cord blood	blood
36	chr5:93071000-93071800	Enhancers	Osteobl	bone
37	chr5:93071200-93071400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr5:93071200-93071600	Enhancers	Sigmoid Colon	Sigmoid Colon
39	chr5:93071200-93072000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links