Variant report

Variant	rs4564382
Chromosome Location	chr12:39848447-39848448
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:39845847..39847426-chr12:39847559..39850195,2	MCF-7	breast:
2	chr12:39843581..39846257-chr12:39846498..39848624,2	K562	blood:
3	chr12:39836535..39839520-chr12:39848057..39851012,2	MCF-7	breast:
4	chr12:39837189..39839293-chr12:39846678..39848641,2	K562	blood:
5	chr12:39761081..39763870-chr12:39846385..39848671,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000252974	Chromatin interaction
ENSG00000139116	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10876972	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10876989	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11172108	0.81[ASN][1000 genomes]
rs11172120	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11172174	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11172183	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11172235	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11172264	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11172282	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11172293	0.81[ASN][1000 genomes]
rs11172319	0.82[EUR][1000 genomes]
rs11172320	0.84[EUR][1000 genomes]
rs11172541	0.87[EUR][1000 genomes]
rs4378431	0.86[EUR][1000 genomes]
rs4466883	0.80[EUR][1000 genomes]
rs4492858	0.84[ASN][1000 genomes]
rs58240943	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs58613501	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs59695906	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs60263267	0.86[EUR][1000 genomes]
rs60900225	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6581188	0.86[EUR][1000 genomes]
rs73094410	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7962283	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7965222	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7966540	0.87[EUR][1000 genomes]
rs7974928	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7979444	0.92[EUR][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	nsv531527	chr12:39680812-40182822	Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv1044049	chr12:39845078-39922808	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1051709	chr12:39846990-39899051	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	3 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	chr12:39847200-39849800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links