Variant report

Variant	rs3920554
Chromosome Location	chr10:37912214-37912215
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs10508859	1.00[ASN][1000 genomes]
rs10508861	1.00[CEU][hapmap];0.96[GIH][hapmap]
rs10734026	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10740948	0.92[AFR][1000 genomes]
rs10764138	0.97[AFR][1000 genomes]
rs10827802	0.94[AFR][1000 genomes]
rs10827804	0.84[AFR][1000 genomes]
rs12243792	1.00[CEU][hapmap];0.96[GIH][hapmap]
rs12265979	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.82[EUR][1000 genomes]
rs12413854	0.81[EUR][1000 genomes]
rs16937571	0.81[EUR][1000 genomes]
rs176460	0.97[AFR][1000 genomes]
rs200907	0.95[CEU][hapmap]
rs200909	0.95[CEU][hapmap]
rs2145305	1.00[ASN][1000 genomes]
rs2208317	0.94[AFR][1000 genomes]
rs2224372	0.95[AFR][1000 genomes]
rs289637	0.97[AFR][1000 genomes]
rs289640	0.97[AFR][1000 genomes]
rs55738335	0.81[EUR][1000 genomes]
rs57430818	0.91[ASN][1000 genomes]
rs58379893	0.96[ASN][1000 genomes]
rs58906790	0.92[ASN][1000 genomes]
rs6482043	0.86[AFR][1000 genomes]
rs6482044	0.82[AFR][1000 genomes]
rs67276704	0.84[EUR][1000 genomes]
rs68087889	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7068885	0.81[EUR][1000 genomes]
rs72789877	0.92[ASN][1000 genomes]
rs72789892	0.82[ASN][1000 genomes]
rs7912428	0.86[AFR][1000 genomes]
rs9418274	0.95[ASN][1000 genomes]
rs9787493	0.85[AFR][1000 genomes]
rs9787710	0.97[AFR][1000 genomes]
rs995141	0.97[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895030	chr10:37715737-38674609	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045684	chr10:37765361-38426204	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv540564	chr10:37765361-38426204	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv971847	chr10:37892555-37920952	Enhancers ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv971846	chr10:37892555-37937603	ZNF genes & repeats Enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs3920554	HSD17B7P2	cis	parietal	SCAN
rs3920554	ZNF37A	Cis_1M	lymphoblastoid	RTeQTL
rs3920554	HSD17B7///HSD17B7P2///LOC730412	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:37911200-37913600	Enhancers	HepG2	liver
2	chr10:37912000-37912600	Enhancers	Stomach Mucosa	stomach

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