Variant report

Variant	rs9492017
Chromosome Location	chr6:128901809-128901810
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:128901548-128901844	Gliobla	brain:	n/a	n/a
2	MYC	chr6:128901735-128902206	MCF10A-Er-Src	breast:	n/a	n/a
3	POLR2A	chr6:128901808-128901840	MCF-7	breast:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr6:128901776-128901826	Caco-2	colon:	n/a
2	chr6:128901776-128901826	RPTEC	kidney:	n/a
3	chr6:128901776-128901826	Jurkat	blood:	n/a
4	chr6:128901776-128901826	HCF	heart:	n/a
5	chr6:128901776-128901826	BJ	skin:	n/a
6	chr6:128901776-128901826	Hepatocyte	liver:	n/a
7	chr6:128901776-128901826	HPAEpiC	pulmonary alveolar:	n/a
8	chr6:128901776-128901826	Hela-S3	cervix:	n/a
9	chr6:128901776-128901826	AG04449	skin:	fetal
10	chr6:128901776-128901826	MCF10A-Er-Src	breast:	n/a
11	chr6:128901776-128901826	SAEC	small airway:	n/a
12	chr6:128901776-128901826	GM19239	blood:	n/a
13	chr6:128901776-128901826	LNCaP	prostate:	n/a
14	chr6:128901776-128901826	AG04450	lung:	fetal
15	chr6:128901776-128901826	H1-hESC	embryonic stem cell:	embryo
16	chr6:128901776-128901826	IMR90	lung:	fetal
17	chr6:128901776-128901826	GM12892	blood:	n/a
18	chr6:128901776-128901826	HAEpiC	amniotic membrane:	n/a
19	chr6:128901776-128901826	A549	lung:	n/a
20	chr6:128901776-128901826	SKMC	muscle:	n/a
21	chr6:128901776-128901826	NHDF-neo	bronchial:	n/a
22	chr6:128901776-128901826	NB4	blood:	n/a
23	chr6:128901776-128901826	PrEC	prostate:	n/a
24	chr6:128901776-128901826	PANC-1	pancreas:	n/a
25	chr6:128901776-128901826	HIPEpiC	eye:	n/a
26	chr6:128901776-128901826	GM06990	blood:	n/a
27	chr6:128901776-128901826	NH-A	brain:	n/a
28	chr6:128901776-128901826	T-47D	breast:	n/a
29	chr6:128901776-128901826	HCPEpiC	choroid plexus:	n/a
30	chr6:128901776-128901826	K562	blood:	n/a
31	chr6:128901776-128901826	SK-N-MC	brain:	n/a
32	chr6:128901776-128901826	HCT-116	colon:	n/a
33	chr6:128901776-128901826	ovcar-3	ovarian:	n/a
34	chr6:128901776-128901826	CMK	blood:	n/a
35	chr6:128901776-128901826	GM12878	blood:	n/a
36	chr6:128901776-128901826	HRPEpiC	eye:	n/a
37	chr6:128901776-128901826	ECC-1	luminal epithelium:	n/a
38	chr6:128901776-128901826	AoSMC	blood vessel:	n/a
39	chr6:128901776-128901826	NT2-D1	testis:	n/a
40	chr6:128901776-128901826	NHBE	bronchial:	n/a
41	chr6:128901776-128901826	U87	brain:	n/a
42	chr6:128901776-128901826	AG09319	gingival:	n/a
43	chr6:128901776-128901826	HEEpiC	esophagus:	n/a
44	chr6:128901776-128901826	SK-N-SH_RA	brain:	n/a
45	chr6:128901776-128901826	AG10803	skin:	n/a
46	chr6:128901776-128901826	GM12891	blood:	n/a
47	chr6:128901776-128901826	ProgFib	skin:	n/a
48	chr6:128901776-128901826	HMEC	breast:	n/a
49	chr6:128901776-128901826	HepG2	liver:	n/a
50	chr6:128901776-128901826	SK-N-SH	brain:	n/a

No data

Variant related genes	Relation type
ENSG00000206982	TF binding region
ENSG00000206982	CpG island

Extended variants
information (count: 130 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:127)

rs_ID	r²[population]
rs10085245	1.00[ASN][1000 genomes]
rs10085247	1.00[ASN][1000 genomes]
rs10085248	1.00[ASN][1000 genomes]
rs10223535	1.00[ASN][1000 genomes]
rs10872331	1.00[ASN][1000 genomes]
rs11154439	1.00[ASN][1000 genomes]
rs11154440	1.00[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11751628	1.00[ASN][1000 genomes]
rs11752256	1.00[ASN][1000 genomes]
rs11753496	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11758545	1.00[ASN][1000 genomes]
rs11758690	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11963575	1.00[ASN][1000 genomes]
rs12524679	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12525214	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12526634	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12526667	1.00[ASN][1000 genomes]
rs12527086	0.86[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12527265	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12529229	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12529511	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12529947	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12529948	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1341584	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1341585	0.85[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1341588	0.81[EUR][1000 genomes]
rs13437323	1.00[ASN][1000 genomes]
rs1417896	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs1572964	0.92[CEU][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055952	1.00[ASN][1000 genomes]
rs17056043	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17364020	1.00[ASN][1000 genomes]
rs17364090	1.00[ASN][1000 genomes]
rs17364118	1.00[ASN][1000 genomes]
rs17364153	1.00[ASN][1000 genomes]
rs17461370	1.00[ASN][1000 genomes]
rs17461759	0.86[CEU][hapmap];1.00[ASN][1000 genomes]
rs1935131	1.00[ASN][1000 genomes]
rs2144376	1.00[CEU][hapmap]
rs2326702	1.00[ASN][1000 genomes]
rs55988836	1.00[ASN][1000 genomes]
rs57922933	1.00[ASN][1000 genomes]
rs62425737	1.00[ASN][1000 genomes]
rs62425738	1.00[ASN][1000 genomes]
rs62425739	1.00[ASN][1000 genomes]
rs62425740	1.00[ASN][1000 genomes]
rs62425742	1.00[ASN][1000 genomes]
rs62425743	1.00[ASN][1000 genomes]
rs62425744	1.00[ASN][1000 genomes]
rs62426790	1.00[ASN][1000 genomes]
rs62426791	1.00[ASN][1000 genomes]
rs62426792	1.00[ASN][1000 genomes]
rs62426793	1.00[ASN][1000 genomes]
rs62426794	1.00[ASN][1000 genomes]
rs62426795	1.00[ASN][1000 genomes]
rs62426796	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426797	1.00[ASN][1000 genomes]
rs62426798	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426799	1.00[ASN][1000 genomes]
rs62426800	1.00[ASN][1000 genomes]
rs62426801	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426804	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426805	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426806	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426840	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426841	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426842	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426844	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426845	0.93[EUR][1000 genomes]
rs62426846	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426847	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426848	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426849	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426850	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426851	1.00[ASN][1000 genomes]
rs62426853	1.00[ASN][1000 genomes]
rs62427780	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62427781	1.00[ASN][1000 genomes]
rs6569529	1.00[ASN][1000 genomes]
rs6569535	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs6569536	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs6916294	0.92[EUR][1000 genomes]
rs714782	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs717617	0.87[CEU][hapmap]
rs7356818	1.00[ASN][1000 genomes]
rs7356823	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs7356912	1.00[ASN][1000 genomes]
rs7454742	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs766306	1.00[ASN][1000 genomes]
rs7738739	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739600	1.00[ASN][1000 genomes]
rs7748742	1.00[ASN][1000 genomes]
rs7751094	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7751265	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs7752487	1.00[ASN][1000 genomes]
rs7754729	0.96[EUR][1000 genomes]
rs7760287	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760572	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760682	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7765212	1.00[ASN][1000 genomes]
rs7768240	1.00[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7771701	1.00[ASN][1000 genomes]
rs9321122	1.00[ASN][1000 genomes]
rs9375578	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs9388647	0.96[EUR][1000 genomes]
rs9388648	0.92[EUR][1000 genomes]
rs9388649	0.96[EUR][1000 genomes]
rs9388650	0.96[EUR][1000 genomes]
rs9402055	0.96[EUR][1000 genomes]
rs9482892	1.00[ASN][1000 genomes]
rs9482893	1.00[ASN][1000 genomes]
rs9482897	1.00[ASN][1000 genomes]
rs9482902	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9482904	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9491988	1.00[ASN][1000 genomes]
rs9492000	0.86[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492002	1.00[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492003	0.96[EUR][1000 genomes]
rs9492004	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492005	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492008	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492011	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492013	1.00[ASN][1000 genomes]
rs9492014	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9492018	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492020	1.00[ASN][1000 genomes]
rs9492021	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	nsv1020071	chr6:128579774-129048919	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv538441	chr6:128579774-129048919	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv830801	chr6:128878436-129064667	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128901200-128902000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:128901400-128902000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:128901600-128902000	Enhancers	Placenta	Placenta
4	chr6:128901600-128902200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:128901800-128902000	ZNF genes & repeats	Pancreas	Pancrea
6	chr6:128901800-128902200	Enhancers	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links