Variant report

Variant	rs973856
Chromosome Location	chr6:145781916-145781917
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 86 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs1045820	0.88[CEU][hapmap]
rs10872579	0.87[CEU][hapmap]
rs11155438	0.84[CEU][hapmap]
rs12663211	0.82[EUR][1000 genomes]
rs1292334	0.88[CEU][hapmap]
rs1292335	0.88[CEU][hapmap];0.87[TSI][hapmap]
rs1292336	0.88[CEU][hapmap]
rs1292337	0.88[CEU][hapmap]
rs1355146	0.89[EUR][1000 genomes]
rs1396648	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs1883406	0.81[EUR][1000 genomes]
rs1883407	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs365515	0.89[EUR][1000 genomes]
rs367612	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs372378	0.83[EUR][1000 genomes]
rs373527	0.88[EUR][1000 genomes]
rs373704	0.82[EUR][1000 genomes]
rs373778	0.81[EUR][1000 genomes]
rs374464	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs375873	0.83[EUR][1000 genomes]
rs377143	0.84[EUR][1000 genomes]
rs378937	0.81[EUR][1000 genomes]
rs380883	0.81[EUR][1000 genomes]
rs384453	0.83[EUR][1000 genomes]
rs386678	0.81[EUR][1000 genomes]
rs388728	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs391524	0.81[EUR][1000 genomes]
rs391820	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs392014	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs395948	0.82[EUR][1000 genomes]
rs396492	0.83[EUR][1000 genomes]
rs397311	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs399516	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs400968	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs404229	0.81[EUR][1000 genomes]
rs405622	0.80[EUR][1000 genomes]
rs406799	0.81[EUR][1000 genomes]
rs413880	0.89[EUR][1000 genomes]
rs418662	0.83[EUR][1000 genomes]
rs421032	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs430003	0.82[EUR][1000 genomes]
rs430561	0.83[EUR][1000 genomes]
rs436066	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4383831	0.80[EUR][1000 genomes]
rs439017	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs441364	0.82[EUR][1000 genomes]
rs441477	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs442435	0.83[EUR][1000 genomes]
rs444564	0.82[EUR][1000 genomes]
rs450076	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs450973	0.82[EUR][1000 genomes]
rs451349	0.81[EUR][1000 genomes]
rs452552	0.81[EUR][1000 genomes]
rs453609	0.83[EUR][1000 genomes]
rs455109	0.81[EUR][1000 genomes]
rs4896832	0.87[CEU][hapmap]
rs4896833	0.87[CEU][hapmap]
rs621382	0.80[EUR][1000 genomes]
rs6570701	0.88[CEU][hapmap]
rs6570703	0.89[CEU][hapmap]
rs6570705	0.88[CEU][hapmap]
rs6918814	0.81[EUR][1000 genomes]
rs6941429	0.84[CEU][hapmap]
rs857875	0.88[CEU][hapmap]
rs857877	0.88[CEU][hapmap]
rs857879	0.88[CEU][hapmap]
rs857880	0.88[CEU][hapmap]
rs857881	0.83[CEU][hapmap]
rs857882	0.88[CEU][hapmap]
rs857883	0.87[CEU][hapmap]
rs9376955	0.83[CEU][hapmap]
rs9376956	0.88[CEU][hapmap]
rs9390326	0.89[EUR][1000 genomes]
rs9390327	0.87[EUR][1000 genomes]
rs9390329	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9399549	0.89[EUR][1000 genomes]
rs9399561	0.84[CEU][hapmap]
rs9403706	0.89[EUR][1000 genomes]
rs9403707	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9403737	0.88[CEU][hapmap]
rs9484995	0.88[EUR][1000 genomes]
rs9497316	0.87[EUR][1000 genomes]
rs9497380	0.88[CEU][hapmap]
rs973855	0.89[EUR][1000 genomes];0.97[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	nsv1017166	chr6:145677071-145808448	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv604838	chr6:145709371-145841146	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs973856	SHPRH	cis	parietal	SCAN
rs973856	SHPRH	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145768200-145803800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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