Variant report

Variant	rs28392619
Chromosome Location	chr4:19456805-19456806
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	YY1	chr4:19456783-19457169	ECC-1	luminal epithelium:	n/a	chr4:19456867-19456883
2	NFIC	chr4:19456643-19457294	ECC-1	luminal epithelium:	n/a	n/a
3	TEAD4	chr4:19456774-19457288	ECC-1	luminal epithelium:	n/a	n/a
4	YY1	chr4:19456799-19457220	ECC-1	luminal epithelium:	n/a	chr4:19456867-19456883
5	CEBPB	chr4:19456799-19457119	ECC-1	luminal epithelium:	n/a	n/a
6	NFIC	chr4:19456770-19457362	ECC-1	luminal epithelium:	n/a	n/a
7	RAD21	chr4:19456792-19457269	ECC-1	luminal epithelium:	n/a	n/a
8	EP300	chr4:19456783-19457315	ECC-1	luminal epithelium:	n/a	n/a

Variant related genes	Relation type
ENSG00000248515	TF binding region

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs10003702	0.86[ASN][1000 genomes]
rs10006103	1.00[ASN][1000 genomes]
rs10006299	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10009772	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10012861	0.96[ASN][1000 genomes]
rs10015294	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10025775	1.00[ASN][1000 genomes]
rs10028337	0.97[ASN][1000 genomes]
rs10031579	0.88[ASN][1000 genomes]
rs10032188	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10032629	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10034324	1.00[ASN][1000 genomes]
rs10212992	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10222803	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10222907	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10222971	0.99[ASN][1000 genomes]
rs10223045	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10470799	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11933898	0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11941599	0.96[ASN][1000 genomes]
rs11941815	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11943058	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11943773	0.90[ASN][1000 genomes]
rs11944084	0.81[ASN][1000 genomes]
rs11945412	0.96[ASN][1000 genomes]
rs11946126	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13434929	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1388145	0.87[ASN][1000 genomes]
rs1388148	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16868608	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28406392	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28445313	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28468581	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28505527	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28506946	0.99[ASN][1000 genomes]
rs28584356	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28612466	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28625215	1.00[ASN][1000 genomes]
rs28649908	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28654609	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28662302	0.96[ASN][1000 genomes]
rs28675174	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28698715	1.00[ASN][1000 genomes]
rs28713269	0.96[ASN][1000 genomes]
rs28749929	1.00[ASN][1000 genomes]
rs28809022	0.95[ASN][1000 genomes]
rs28834385	1.00[ASN][1000 genomes]
rs28849735	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28861473	1.00[ASN][1000 genomes]
rs4380521	0.87[ASN][1000 genomes]
rs4472135	0.87[ASN][1000 genomes]
rs4541506	0.96[ASN][1000 genomes]
rs4572879	0.87[ASN][1000 genomes]
rs4637398	0.96[ASN][1000 genomes]
rs59192349	0.87[ASN][1000 genomes]
rs59810064	0.96[ASN][1000 genomes]
rs60069867	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60284344	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61359326	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62296707	0.96[ASN][1000 genomes]
rs62296709	0.96[ASN][1000 genomes]
rs62298737	0.95[ASN][1000 genomes]
rs6837423	0.96[ASN][1000 genomes]
rs73092965	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73092970	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73092977	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73092981	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73092983	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73092984	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73097402	0.96[ASN][1000 genomes]
rs73099604	0.96[ASN][1000 genomes]
rs73099613	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73099658	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73099698	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73101116	0.90[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs73101119	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73110725	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73110735	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73110746	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9291404	0.87[ASN][1000 genomes]
rs982066	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs982067	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9990468	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9994751	0.87[ASN][1000 genomes]
rs9998589	0.95[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	nsv593785	chr4:19092157-19521956	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv878732	chr4:19172031-19660947	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv878733	chr4:19335464-19928602	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:19456800-19458800	Active TSS	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links