Variant report

Variant	rs4236853
Chromosome Location	chr8:99463047-99463048
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:99460244..99464228-chr8:99464642..99466340,3	MCF-7	breast:
2	chr8:99455496..99458088-chr8:99462894..99465787,2	MCF-7	breast:
3	chr8:99457417..99459146-chr8:99461965..99464100,2	K562	blood:

Extended variants
information (count: 60 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10086870	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs10098835	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10099978	1.00[CEU][hapmap];0.93[TSI][hapmap];0.83[EUR][1000 genomes]
rs10100346	0.92[CEU][hapmap]
rs10100378	0.83[EUR][1000 genomes]
rs10100546	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10100577	0.83[EUR][1000 genomes]
rs10111264	0.83[EUR][1000 genomes]
rs10441501	0.81[CEU][hapmap];0.87[TSI][hapmap]
rs10755897	0.83[GIH][hapmap]
rs10955174	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10955175	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10955176	0.96[CEU][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10955177	0.81[AMR][1000 genomes]
rs10955178	0.91[CHB][hapmap];0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10955181	0.82[TSI][hapmap]
rs10955184	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs10955185	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs11774066	0.90[ASN][1000 genomes]
rs11781352	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11985382	1.00[CEU][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12056323	0.88[CEU][hapmap];0.89[TSI][hapmap]
rs12541026	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs12542022	1.00[CEU][hapmap];0.89[GIH][hapmap];0.84[MEX][hapmap];0.95[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12542931	1.00[CEU][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes]
rs12544768	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs12546344	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12547922	1.00[CEU][hapmap];0.93[TSI][hapmap];0.83[EUR][1000 genomes]
rs12548477	1.00[CEU][hapmap];0.93[TSI][hapmap];0.83[EUR][1000 genomes]
rs12549563	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12550198	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs13257475	0.86[JPT][hapmap]
rs13258810	0.90[ASN][1000 genomes]
rs16892236	1.00[CEU][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];0.87[MKK][hapmap];0.93[TSI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16897061	0.82[ASW][hapmap];0.96[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.87[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16897076	0.81[CHD][hapmap];0.86[JPT][hapmap]
rs34580087	0.81[AMR][1000 genomes]
rs3802198	1.00[CEU][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes]
rs4130753	0.81[CEU][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes]
rs4301421	1.00[CEU][hapmap];0.91[TSI][hapmap];0.81[EUR][1000 genomes]
rs4332102	1.00[CEU][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes]
rs4370499	0.96[CEU][hapmap];0.89[GIH][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4388428	0.81[CEU][hapmap];0.89[TSI][hapmap]
rs4407850	0.81[EUR][1000 genomes]
rs4618666	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4734406	0.81[CEU][hapmap];0.81[AMR][1000 genomes]
rs4734407	1.00[CEU][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4735564	0.88[CEU][hapmap];0.89[TSI][hapmap]
rs4995528	0.81[CEU][hapmap];0.87[TSI][hapmap];0.81[AMR][1000 genomes]
rs62532757	0.80[AMR][1000 genomes]
rs6651181	0.82[TSI][hapmap]
rs7007360	0.81[CEU][hapmap];0.87[TSI][hapmap];0.81[AMR][1000 genomes]
rs7011763	0.84[TSI][hapmap]
rs7015739	1.00[CEU][hapmap];0.91[TSI][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7815227	0.81[CEU][hapmap]
rs7845395	1.00[CEU][hapmap];0.91[TSI][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9642951	0.87[AMR][1000 genomes];0.88[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	nsv1032904	chr8:98756076-99476925	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv539687	chr8:98756076-99476925	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
3	nsv831406	chr8:99290745-99482076	Enhancers Bivalent/Poised TSS ZNF genes & repeats Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4236853	NACAP1	cis	parietal	SCAN
rs4236853	OSR2	cis	cerebellum	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:99441400-99472600	Weak transcription	Pancreas	Pancrea
2	chr8:99458200-99467600	Weak transcription	Liver	Liver
3	chr8:99460400-99466000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr8:99461800-99525000	Weak transcription	Psoas Muscle	Psoas
5	chr8:99463000-99468000	Enhancers	Fetal Heart	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links