Variant report

Variant	rs7540080
Chromosome Location	chr1:95543525-95543526
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:95543478..95545914-chr1:95548996..95550848,2	K562	blood:
2	chr1:95537638..95539562-chr1:95542128..95544518,2	MCF-7	breast:
3	chr1:95542549..95544382-chr1:95554227..95556548,2	K562	blood:
4	chr1:95534244..95536738-chr1:95541895..95543899,2	K562	blood:
5	chr1:95539591..95541319-chr1:95541795..95543723,2	K562	blood:

Variant related genes	Relation type
ENSG00000172339	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10747462	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10874900	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10874901	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11165285	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11165290	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11165291	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11165292	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11165296	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11165301	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12022525	0.90[EUR][1000 genomes]
rs12036045	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12060761	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12082888	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12120694	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12402604	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12408845	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17100482	0.84[EUR][1000 genomes]
rs17112867	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4427415	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4565770	0.84[EUR][1000 genomes]
rs57001838	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7526765	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7539517	0.87[EUR][1000 genomes]
rs7551774	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]

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	nsv830636	chr1:95495849-95703126	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:95539800-95549000	Weak transcription	K562	blood
2	chr1:95542000-95549600	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links