Variant report

Variant	rs993594
Chromosome Location	chr3:55900438-55900439
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:55893131..55895315-chr3:55900405..55902843,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs12633538	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12636793	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1379710	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1458066	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17056061	0.83[EUR][1000 genomes]
rs17056065	0.90[EUR][1000 genomes]
rs17056081	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17056090	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17056098	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1902861	0.90[EUR][1000 genomes]
rs35046325	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55675302	0.88[EUR][1000 genomes]
rs55682897	0.88[EUR][1000 genomes]
rs56211981	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62253660	0.85[AMR][1000 genomes]
rs62253661	0.85[AMR][1000 genomes]
rs62255831	0.83[EUR][1000 genomes]
rs62255832	0.83[EUR][1000 genomes]
rs62255835	0.88[EUR][1000 genomes]
rs62256771	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62256772	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62256773	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62256774	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62256778	0.85[AMR][1000 genomes]
rs6763408	0.96[AMR][1000 genomes]
rs6766607	0.83[EUR][1000 genomes]
rs6769408	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs67824942	0.86[EUR][1000 genomes]
rs73073394	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs733509	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7609626	0.87[CEU][hapmap]
rs7617166	0.87[CEU][hapmap]
rs7618265	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7636943	0.87[CEU][hapmap]
rs897965	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][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:6 , 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	chr3:55894000-55901400	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr3:55894600-55901200	Weak transcription	Brain Hippocampus Middle	brain
5	chr3:55895800-55901400	Weak transcription	Brain Substantia Nigra	brain
6	chr3:55897600-55904600	Weak transcription	Brain Germinal Matrix	brain

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