Variant report

Variant	rs12285111
Chromosome Location	chr11:58208385-58208386
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr11:58208367-58208417	GM12878	blood:	n/a
2	chr11:58208367-58208417	SK-N-MC	brain:	n/a
3	chr11:58208367-58208417	NB4	blood:	n/a
4	chr11:58208367-58208417	SKMC	muscle:	n/a
5	chr11:58208367-58208417	Hela-S3	cervix:	n/a
6	chr11:58208367-58208417	ovcar-3	ovarian:	n/a
7	chr11:58208367-58208417	SAEC	small airway:	n/a
8	chr11:58208367-58208417	MCF10A-Er-Src	breast:	n/a
9	chr11:58208367-58208417	HUVEC	blood vessel:	n/a
10	chr11:58208367-58208417	RPTEC	kidney:	n/a
11	chr11:58208367-58208417	HPAEpiC	pulmonary alveolar:	n/a
12	chr11:58208367-58208417	NT2-D1	testis:	n/a
13	chr11:58208367-58208417	GM12891	blood:	n/a
14	chr11:58208367-58208417	AG09319	gingival:	n/a
15	chr11:58208367-58208417	SK-N-SH_RA	brain:	n/a
16	chr11:58208367-58208417	HIPEpiC	eye:	n/a
17	chr11:58208367-58208417	HAEpiC	amniotic membrane:	n/a
18	chr11:58208367-58208417	HCPEpiC	choroid plexus:	n/a
19	chr11:58208367-58208417	HNPCEpiC	eye:	n/a
20	chr11:58208367-58208417	HEEpiC	esophagus:	n/a
21	chr11:58208367-58208417	PANC-1	pancreas:	n/a
22	chr11:58208367-58208417	ProgFib	skin:	n/a
23	chr11:58208367-58208417	H1-hESC	embryonic stem cell:	embryo
24	chr11:58208367-58208417	NHDF-neo	bronchial:	n/a
25	chr11:58208367-58208417	GM06990	blood:	n/a
26	chr11:58208367-58208417	HL-60	blood:	n/a
27	chr11:58208367-58208417	HCT-116	colon:	n/a
28	chr11:58208367-58208417	Hepatocyte	liver:	n/a
29	chr11:58208367-58208417	CMK	blood:	n/a
30	chr11:58208367-58208417	ECC-1	luminal epithelium:	n/a
31	chr11:58208367-58208417	T-47D	breast:	n/a
32	chr11:58208367-58208417	PFSK-1	brain:	n/a
33	chr11:58208367-58208417	HRPEpiC	eye:	n/a
34	chr11:58208367-58208417	HCF	heart:	n/a
35	chr11:58208367-58208417	BE2_C	brain:	n/a
36	chr11:58208367-58208417	HRE	kidney:	n/a
37	chr11:58208367-58208417	NH-A	brain:	n/a
38	chr11:58208367-58208417	BJ	skin:	n/a
39	chr11:58208367-58208417	U87	brain:	n/a
40	chr11:58208367-58208417	LNCaP	prostate:	n/a
41	chr11:58208367-58208417	GM12892	blood:	n/a
42	chr11:58208367-58208417	GM19239	blood:	n/a
43	chr11:58208367-58208417	AoSMC	blood vessel:	n/a
44	chr11:58208367-58208417	IMR90	lung:	fetal
45	chr11:58208367-58208417	AG04449	skin:	fetal
46	chr11:58208367-58208417	Caco-2	colon:	n/a
47	chr11:58208367-58208417	AG09309	skin:	n/a
48	chr11:58208367-58208417	PrEC	prostate:	n/a
49	chr11:58208367-58208417	SK-N-SH	brain:	n/a
50	chr11:58208367-58208417	K562	blood:	n/a

No data

Variant related genes	Relation type
OR5B12	CpG island

Extended variants
information (count: 133 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:130)

rs_ID	r²[population]
rs10750894	0.83[ASN][1000 genomes]
rs10750895	0.93[ASN][1000 genomes]
rs10750898	0.95[ASN][1000 genomes]
rs10792159	0.84[ASN][1000 genomes]
rs10792165	0.95[ASN][1000 genomes]
rs10896736	0.84[ASN][1000 genomes]
rs10896738	0.84[ASN][1000 genomes]
rs10896742	0.84[ASN][1000 genomes]
rs10896748	0.83[ASN][1000 genomes]
rs10896749	0.93[ASN][1000 genomes]
rs10896754	0.85[ASN][1000 genomes]
rs10896755	0.95[ASN][1000 genomes]
rs10896760	0.95[ASN][1000 genomes]
rs10896761	0.95[ASN][1000 genomes]
rs10896774	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10896775	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10896785	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10896787	0.85[AMR][1000 genomes]
rs10896788	0.85[AMR][1000 genomes]
rs10896794	0.83[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.87[AMR][1000 genomes]
rs10896795	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs11229333	0.82[ASN][1000 genomes]
rs11229349	0.80[ASN][1000 genomes]
rs11229352	0.83[ASN][1000 genomes]
rs11229353	0.93[ASN][1000 genomes]
rs11229355	0.93[ASN][1000 genomes]
rs11229365	0.93[ASN][1000 genomes]
rs11229366	0.93[ASN][1000 genomes]
rs11229396	0.97[ASN][1000 genomes]
rs11229397	0.97[ASN][1000 genomes]
rs11229409	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs11229410	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap]
rs11229411	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap]
rs11229412	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap]
rs11229413	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap]
rs11229423	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11229463	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs11229505	0.83[CEU][hapmap];0.84[CHB][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.87[AMR][1000 genomes]
rs11229512	0.87[AMR][1000 genomes]
rs11229519	0.83[CEU][hapmap];0.84[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.87[AMR][1000 genomes]
rs11229543	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs11229545	0.84[CHB][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap]
rs11530830	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11601687	0.87[AMR][1000 genomes]
rs11605269	0.87[AMR][1000 genomes]
rs11605297	0.83[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.87[AMR][1000 genomes]
rs11605683	0.83[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes]
rs11607488	0.97[ASN][1000 genomes]
rs12269745	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12274866	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12278357	0.86[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12279895	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap]
rs12280114	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12283414	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12286421	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12289198	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12290089	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12291551	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12294062	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12575804	0.97[ASN][1000 genomes]
rs12786744	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12788786	0.87[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12789701	0.97[ASN][1000 genomes]
rs12797488	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12798255	0.97[ASN][1000 genomes]
rs12800710	0.83[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.87[AMR][1000 genomes]
rs12802819	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12802960	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12803648	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12804134	0.85[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs17474373	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17567523	0.87[AMR][1000 genomes]
rs1893902	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs1938637	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap];0.95[ASN][1000 genomes]
rs1938646	0.93[ASN][1000 genomes]
rs1938647	0.93[ASN][1000 genomes]
rs1938662	0.93[ASN][1000 genomes]
rs1938663	0.93[ASN][1000 genomes]
rs1938664	0.93[ASN][1000 genomes]
rs1986404	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2000486	0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2003231	0.97[ASN][1000 genomes]
rs2186407	0.83[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs2226414	0.90[ASN][1000 genomes]
rs2275993	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs2298608	0.84[CHB][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap]
rs3168135	0.84[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap]
rs35279927	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35542119	0.85[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs3887001	0.93[ASN][1000 genomes]
rs4085405	0.81[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs4127345	0.82[ASN][1000 genomes]
rs4127346	0.84[ASN][1000 genomes]
rs4127348	0.93[ASN][1000 genomes]
rs4127353	0.86[ASW][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs4288769	0.84[ASN][1000 genomes]
rs4323891	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4347409	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4439529	0.84[ASN][1000 genomes]
rs4439530	0.94[ASN][1000 genomes]
rs4506677	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4517537	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4519112	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4544018	0.94[ASN][1000 genomes]
rs4561231	0.95[ASN][1000 genomes]
rs4579945	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4611223	0.90[ASN][1000 genomes]
rs4611224	0.93[ASN][1000 genomes]
rs4938893	0.83[ASN][1000 genomes]
rs6591469	0.93[ASN][1000 genomes]
rs6591475	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];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7101864	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs7102222	0.93[ASN][1000 genomes]
rs7102510	0.84[CHB][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap]
rs7102784	0.84[ASN][1000 genomes]
rs7102852	0.87[AMR][1000 genomes]
rs7104814	0.82[ASN][1000 genomes]
rs7110210	0.87[AMR][1000 genomes]
rs7110266	0.93[ASN][1000 genomes]
rs7112318	0.86[ASN][1000 genomes]
rs7112578	0.87[ASN][1000 genomes]
rs7117244	0.93[ASN][1000 genomes]
rs7127035	0.84[ASN][1000 genomes]
rs734776	0.95[ASN][1000 genomes]
rs754681	0.95[ASN][1000 genomes]
rs7925560	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7926741	0.82[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs7930778	1.00[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap]
rs7931394	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8373	0.84[CHB][hapmap];1.00[JPT][hapmap]

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	nsv1054205	chr11:57544264-58358509	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv517849	chr11:58129053-58264181	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	nsv1042491	chr11:58134936-58263639	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12285111	SERPING1	cis	parietal	SCAN
rs12285111	MS4A10	cis	cerebellum	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links