Variant report

Variant	rs4803528
Chromosome Location	chr19:38324066-38324067
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF573-1	chr19:38323987-38324154	ENSG00000225868
2	lnc-ZNF573-1	chr19:38324008-38324154	ENSG00000225868.2
3	lnc-ZNF573-1	chr19:38323987-38324154	NR_040015
4	lnc-ZNF573-1	chr19:38323987-38324154	ENSG00000225868.2

Extended variants
information (count: 46 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10401281	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10401637	0.81[ASN][1000 genomes]
rs10402530	0.85[ASN][1000 genomes]
rs10404567	0.91[CHB][hapmap];0.95[CHD][hapmap];0.80[JPT][hapmap]
rs10420595	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10420891	0.85[ASN][1000 genomes]
rs10427125	0.81[ASN][1000 genomes]
rs11878269	0.84[ASN][1000 genomes]
rs11879180	0.85[ASN][1000 genomes]
rs12975057	0.85[ASN][1000 genomes]
rs1643466	0.89[CHB][hapmap]
rs1643467	0.90[CHB][hapmap]
rs1643468	0.90[CHB][hapmap]
rs2068431	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2075281	0.95[CHB][hapmap];0.80[JPT][hapmap];0.84[ASN][1000 genomes]
rs2075283	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2305105	0.85[EUR][1000 genomes]
rs2382623	0.85[CEU][hapmap]
rs353414	0.90[CHB][hapmap]
rs353423	0.90[CHB][hapmap]
rs3848625	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3848626	0.81[ASN][1000 genomes]
rs3910952	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4802135	0.95[CHB][hapmap];0.85[ASN][1000 genomes]
rs4803524	0.95[CHB][hapmap];0.98[CHD][hapmap];0.80[JPT][hapmap];0.84[ASN][1000 genomes]
rs4803525	0.85[EUR][1000 genomes]
rs58449039	0.85[ASN][1000 genomes]
rs705492	0.95[CHB][hapmap]
rs705494	0.95[CHB][hapmap];0.95[CHD][hapmap]
rs705496	0.85[CEU][hapmap];0.87[TSI][hapmap]
rs7245864	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7250409	0.95[CHB][hapmap];0.95[CHD][hapmap];0.80[JPT][hapmap]
rs7250571	0.81[ASN][1000 genomes]
rs7250868	0.81[ASN][1000 genomes]
rs8101752	0.81[ASN][1000 genomes]
rs8101858	0.82[ASN][1000 genomes]
rs8102579	0.95[CHB][hapmap];0.98[CHD][hapmap];0.80[JPT][hapmap];0.85[ASN][1000 genomes]
rs8104076	0.84[ASN][1000 genomes]
rs8108245	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs8110284	0.95[CHB][hapmap]
rs8182498	0.85[ASN][1000 genomes]
rs833895	0.95[CHB][hapmap]
rs833914	0.90[CHB][hapmap]

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	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv833820	chr19:38190721-38414049	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv1062040	chr19:38294465-38370456	Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs4803528	TMEM145	cis	parietal	SCAN
rs4803528	ARHGEF1	cis	cerebellum	SCAN
rs4803528	TRAPPC6A	cis	cerebellum	SCAN
rs4803528	PSMC4	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38314400-38324600	ZNF genes & repeats	Adipose Nuclei	Adipose
2	chr19:38319600-38324800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell

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