Variant report

Variant	rs2412761
Chromosome Location	chr4:57733499-57733500
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs11133472	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs11573128	1.00[CHB][hapmap];0.84[MEX][hapmap]
rs11721387	0.82[ASN][1000 genomes]
rs11726410	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11726443	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11726548	0.82[ASN][1000 genomes]
rs11727329	1.00[ASN][1000 genomes]
rs11730321	0.89[CEU][hapmap];0.95[GIH][hapmap];0.90[TSI][hapmap]
rs11730396	0.82[EUR][1000 genomes]
rs11731657	0.82[ASN][1000 genomes]
rs11732394	1.00[CHB][hapmap]
rs13123018	0.92[ASN][1000 genomes]
rs13125082	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs13128671	0.92[ASN][1000 genomes]
rs13130600	1.00[ASN][1000 genomes]
rs13130604	0.92[ASN][1000 genomes]
rs13146090	1.00[CHB][hapmap]
rs13146153	1.00[CHB][hapmap]
rs17087358	1.00[CHB][hapmap]
rs17183291	1.00[CHB][hapmap]
rs2002153	0.87[AFR][1000 genomes]
rs34308849	0.91[ASN][1000 genomes]
rs34840470	0.91[ASN][1000 genomes]
rs34937594	0.91[ASN][1000 genomes]
rs35185186	0.92[ASN][1000 genomes]
rs35318869	0.91[ASN][1000 genomes]
rs4109037	1.00[CHB][hapmap]
rs41495551	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs4276341	0.86[AFR][1000 genomes]
rs4413466	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4443350	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56143151	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56309796	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62308068	0.82[ASN][1000 genomes]
rs62308099	0.91[ASN][1000 genomes]
rs62308100	0.91[ASN][1000 genomes]
rs62308107	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62308110	0.80[EUR][1000 genomes]
rs62308153	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66619445	0.92[ASN][1000 genomes]
rs6835102	0.80[EUR][1000 genomes]
rs6835108	0.80[EUR][1000 genomes]
rs6839166	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6857005	0.81[EUR][1000 genomes]
rs6858216	0.80[EUR][1000 genomes]
rs7656865	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs7684642	0.91[ASN][1000 genomes]
rs7685053	0.91[ASN][1000 genomes]
rs9055	0.92[ASN][1000 genomes]
rs9684742	0.86[AFR][1000 genomes]
rs9760540	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[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	nsv868815	chr4:57114268-58084688	Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
2	nsv1012287	chr4:57652778-57853485	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats 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	26 gene(s)	inside rSNPs	diseases
3	nsv1012125	chr4:57668229-57865803	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2412761	WDR17	trans	cerebellum	SCAN
rs2412761	IGFBP7	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:57727800-57737600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr4:57727800-57740600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links