Variant report

Variant	rs990429
Chromosome Location	chr10:112813225-112813226
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10787287	0.85[ASW][hapmap];0.81[CHD][hapmap]
rs10787292	0.92[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap]
rs10787298	0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10885075	0.84[ASW][hapmap]
rs10885076	0.84[ASW][hapmap];0.93[MKK][hapmap];0.81[YRI][hapmap]
rs12412661	0.95[EUR][1000 genomes]
rs1327553	0.90[AFR][1000 genomes];0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1359849	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap]
rs1410054	0.86[ASN][1000 genomes]
rs1410055	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1410057	0.84[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap]
rs1581886	0.92[CHB][hapmap];0.81[JPT][hapmap]
rs1887460	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1980869	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.92[TSI][hapmap];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4309090	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs6585026	0.84[ASW][hapmap];0.89[MKK][hapmap]
rs6585027	0.84[ASN][1000 genomes]
rs7082572	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs7085088	0.94[EUR][1000 genomes]
rs7086350	0.92[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.87[ASN][1000 genomes]
rs7088364	0.86[ASN][1000 genomes]
rs7090695	0.95[EUR][1000 genomes]
rs7095404	0.85[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap]
rs7101075	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs7913363	0.82[GIH][hapmap]

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	nsv498045	chr10:112794518-113353550	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs990429	NRAP	cis	parietal	SCAN
rs990429	HABP2	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:112813200-112817000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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