Variant report

Variant	rs10992471
Chromosome Location	chr9:95559505-95559506
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10124058	0.87[ASN][1000 genomes]
rs10125587	1.00[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs10821008	1.00[CHB][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs10992457	0.87[ASN][1000 genomes]
rs12686606	0.86[ASN][1000 genomes]
rs13286566	0.87[ASN][1000 genomes]
rs2296669	0.92[CHD][hapmap]
rs7043984	1.00[CHB][hapmap];0.92[CHD][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs7848399	0.88[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs7861907	0.81[ASN][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	nsv430081	chr9:95502571-95568110	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv831654	chr9:95542920-95720961	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv982595	chr9:95551536-95561640	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Visceral adipose tissue/subcutaneous adipose tissue ratio	22589738	GWAS catalog

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs10992471	SUSD3	cis	multi-tissue	Pritchard
rs10992471	FAM120A	cis	parietal	SCAN
rs10992471	ZNF484	cis	cerebellum	SCAN
rs10992471	CENPP	cis	parietal	SCAN
rs10992471	ZNF484	cis	parietal	SCAN
rs10992471	OMD	cis	cerebellum	SCAN
rs10992471	CENPP	cis	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95558600-95569600	Weak transcription	Right Atrium	heart
2	chr9:95559000-95563000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:95559400-95559600	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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