Variant report

Variant	rs59299896
Chromosome Location	chr3:100208656-100208657
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	chr3:100207350..100209197-chr3:100209386..100212217,2	MCF-7	breast:
2	chr3:100120020..100122994-chr3:100208186..100210506,3	K562	blood:

Variant related genes	Relation type
ENSG00000181458	Chromatin interaction
ENSG00000206535	Chromatin interaction
ENSG00000154174	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs11920006	0.96[ASN][1000 genomes]
rs11923942	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11926280	0.87[ASN][1000 genomes]
rs11927516	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12631075	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12634371	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12636805	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12639465	0.89[EUR][1000 genomes]
rs4132537	0.87[ASN][1000 genomes]
rs4928097	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4928098	0.96[ASN][1000 genomes]
rs4928111	0.82[AMR][1000 genomes]
rs57018910	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs58059387	0.96[ASN][1000 genomes]
rs58789183	0.82[AMR][1000 genomes]
rs59771628	0.96[ASN][1000 genomes]
rs60071944	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60272820	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs61636409	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62276517	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62276520	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276521	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276522	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62276523	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62276526	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62276527	0.87[ASN][1000 genomes]
rs62276556	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62276559	0.89[EUR][1000 genomes]
rs6441285	0.88[ASN][1000 genomes]
rs66791174	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs67600559	0.95[EUR][1000 genomes]
rs6763079	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6763178	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67774605	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6789867	0.96[ASN][1000 genomes]
rs6798264	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73152126	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7429072	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7429277	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7429604	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7430698	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7430715	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7431846	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7619507	0.95[ASN][1000 genomes]
rs7630198	0.96[ASN][1000 genomes]
rs9813069	0.83[ASN][1000 genomes]
rs9851429	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][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	nsv877218	chr3:100176360-100267619	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs59299896	TMEM45A	cis	Whole Blood	GTEx

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100205000-100210400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:100205000-100210800	Weak transcription	K562	blood
3	chr3:100206600-100210600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr3:100208600-100208800	Enhancers	Primary neutrophils fromperipheralblood	blood

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