Variant report

Variant	rs9471105
Chromosome Location	chr6:39413634-39413635
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs11751847	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11752175	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11754807	1.00[JPT][hapmap]
rs11754808	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11755434	0.82[ASN][1000 genomes]
rs11757080	0.82[ASN][1000 genomes]
rs11759743	0.82[ASN][1000 genomes]
rs12525519	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12528130	0.82[ASN][1000 genomes]
rs13200342	0.82[ASN][1000 genomes]
rs13213322	0.82[ASN][1000 genomes]
rs13213488	0.82[ASN][1000 genomes]
rs1410488	0.83[AFR][1000 genomes]
rs1536700	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs16892194	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1927774	0.94[ASW][hapmap];0.84[MKK][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes]
rs1927775	0.92[YRI][hapmap]
rs2026670	0.82[ASW][hapmap];0.87[LWK][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes]
rs2815047	1.00[CHB][hapmap]
rs4714254	0.81[AFR][1000 genomes]
rs55749620	0.82[ASN][1000 genomes]
rs56713174	0.82[ASN][1000 genomes]
rs6458116	1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap]
rs6927837	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6928195	0.82[ASN][1000 genomes]
rs6928537	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6942056	0.82[ASN][1000 genomes]
rs71571377	0.82[ASN][1000 genomes]
rs7751942	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7754249	0.82[ASN][1000 genomes]
rs7771470	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7774528	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9380862	0.82[AFR][1000 genomes]
rs9380863	0.92[YRI][hapmap];0.89[AFR][1000 genomes]
rs9471103	0.82[AFR][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	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv428145	chr6:39404129-39460795	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9471105	MDGA1	cis	cerebellum	SCAN
rs9471105	TREM2	cis	cerebellum	SCAN
rs9471105	USP49	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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

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