Variant report

Variant	rs9389724
Chromosome Location	chr6:140154211-140154212
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11155086	0.96[ASN][1000 genomes]
rs3001013	0.96[ASN][1000 genomes]
rs3001017	0.96[ASN][1000 genomes]
rs3001018	0.88[ASN][1000 genomes]
rs3001019	0.92[ASN][1000 genomes]
rs3015437	0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs6920582	0.87[ASN][1000 genomes]
rs6941977	0.89[ASN][1000 genomes]
rs9389718	0.88[ASN][1000 genomes]
rs9403118	0.87[ASN][1000 genomes]
rs9403126	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv830820	chr6:140059279-140255292	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
3	nsv1017015	chr6:140084137-140300565	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1019407	chr6:140087307-140304334	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1022881	chr6:140098646-140172570	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
6	nsv886692	chr6:140111650-140155090	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs9389724	IL20RA	cis	parietal	SCAN
rs9389724	ADAT2	cis	cerebellum	SCAN
rs9389724	PERP	cis	cerebellum	SCAN
rs9389724	ADAT2	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140142200-140160800	Weak transcription	Aorta	Aorta
2	chr6:140150600-140155200	Weak transcription	K562	blood
3	chr6:140151000-140154600	Weak transcription	Adipose Nuclei	Adipose
4	chr6:140151000-140161400	Weak transcription	Left Ventricle	heart
5	chr6:140153600-140155600	Enhancers	Skeletal Muscle Female	skeletal muscle
6	chr6:140154000-140156000	Enhancers	Liver	Liver

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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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