Variant report

Variant	rs1458066
Chromosome Location	chr3:55903088-55903089
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:55895607..55898106-chr3:55901705..55904123,2	K562	blood:

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs12108171	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12633538	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12636793	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1379710	0.82[EUR][1000 genomes]
rs17056053	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17056061	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17056065	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17056081	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17056090	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17056093	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17056098	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1902861	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35046325	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs55673265	0.88[ASN][1000 genomes]
rs55675302	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55682897	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55724092	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs55957219	0.88[ASN][1000 genomes]
rs55967115	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55971093	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57688760	0.88[ASN][1000 genomes]
rs58422259	0.88[ASN][1000 genomes]
rs59611401	0.88[ASN][1000 genomes]
rs62253660	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62253661	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62253664	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs62253666	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs62253667	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs62255821	0.88[ASN][1000 genomes]
rs62255831	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62255832	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62255835	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62256771	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62256772	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62256773	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62256774	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62256778	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6445755	1.00[ASN][1000 genomes]
rs6763408	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6766607	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6769408	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6790300	0.88[ASN][1000 genomes]
rs73073394	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73075332	0.82[AMR][1000 genomes]
rs73075334	0.82[AMR][1000 genomes]
rs733509	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7609626	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7617166	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7618265	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7631779	0.88[ASN][1000 genomes]
rs7631846	0.88[ASN][1000 genomes]
rs7636943	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7638901	0.88[ASN][1000 genomes]
rs7639013	0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7649504	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs897965	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9815155	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs993594	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv876815	chr3:55895409-55979964	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:55893000-55908800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:55893600-55923600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:55897600-55904600	Weak transcription	Brain Germinal Matrix	brain
4	chr3:55902200-55903400	Enhancers	Brain Anterior Caudate	brain
5	chr3:55902400-55903200	Weak transcription	Brain Substantia Nigra	brain
6	chr3:55902600-55904600	Weak transcription	Brain Hippocampus Middle	brain
7	chr3:55902800-55910600	Weak transcription	Brain Cingulate Gyrus	brain
8	chr3:55903000-55904800	Weak transcription	Brain Inferior Temporal Lobe	brain

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