Variant report

Variant	rs13324873
Chromosome Location	chr3:146496603-146496604
allele	A/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:78)

rs_ID	r²[population]
rs10222373	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10470459	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10470460	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10935644	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12330695	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695830	1.00[ASN][1000 genomes]
rs1319533	1.00[ASN][1000 genomes]
rs13324524	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13325265	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13353410	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1402737	0.83[AFR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1431967	1.00[ASN][1000 genomes]
rs1431969	1.00[ASN][1000 genomes]
rs1521579	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1521588	1.00[ASN][1000 genomes]
rs17368735	1.00[ASN][1000 genomes]
rs17433714	1.00[ASN][1000 genomes]
rs2116430	1.00[ASN][1000 genomes]
rs2116431	1.00[ASN][1000 genomes]
rs28498057	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28539305	1.00[ASN][1000 genomes]
rs2868954	1.00[ASN][1000 genomes]
rs28729741	1.00[ASN][1000 genomes]
rs55848109	1.00[ASN][1000 genomes]
rs56046201	1.00[ASN][1000 genomes]
rs56737593	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58365455	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6771456	1.00[ASN][1000 genomes]
rs6783801	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6794178	1.00[ASN][1000 genomes]
rs6808571	1.00[ASN][1000 genomes]
rs6809355	1.00[ASN][1000 genomes]
rs73156972	1.00[ASN][1000 genomes]
rs73156981	1.00[ASN][1000 genomes]
rs73156988	1.00[ASN][1000 genomes]
rs73156990	1.00[ASN][1000 genomes]
rs73159103	1.00[ASN][1000 genomes]
rs73159127	1.00[ASN][1000 genomes]
rs73159146	1.00[ASN][1000 genomes]
rs73159151	1.00[ASN][1000 genomes]
rs73159171	1.00[ASN][1000 genomes]
rs7610634	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7613246	1.00[ASN][1000 genomes]
rs7614167	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7626080	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7636940	1.00[ASN][1000 genomes]
rs7640043	1.00[ASN][1000 genomes]
rs7642952	1.00[ASN][1000 genomes]
rs7650149	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9289733	1.00[ASN][1000 genomes]
rs9810942	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9814690	1.00[ASN][1000 genomes]
rs9818401	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9820879	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9826710	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9831349	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9835696	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9836951	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9841310	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9841704	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9847241	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9850124	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9851037	0.81[EUR][1000 genomes]
rs9851720	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9852256	1.00[ASN][1000 genomes]
rs9857093	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9859125	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9860770	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9861056	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9862802	1.00[ASN][1000 genomes]
rs9863350	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9863944	1.00[ASN][1000 genomes]
rs9868411	1.00[ASN][1000 genomes]
rs9868687	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9869328	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9872644	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9874910	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9881534	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv516386	chr3:146366513-146758405	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv591961	chr3:146394094-146725217	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1007875	chr3:146401461-146776618	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv877624	chr3:146414837-146536741	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv998040	chr3:146416916-146729962	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv536760	chr3:146416916-146729962	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv1001931	chr3:146419061-146745361	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv877625	chr3:146461435-146521978	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs13324873	UBQLN4	cis	parietal	SCAN
rs13324873	HLTF	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:146490600-146498800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr3:146495800-146496800	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr3:146496000-146496800	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr3:146496200-146498200	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr3:146496200-146498600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr3:146496400-146498800	Weak transcription	H9 Cell Line	embryonic stem cell

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