Variant report

Variant	rs4886742
Chromosome Location	chr15:76072030-76072031
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10163112	0.88[ASW][hapmap];0.86[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.81[ASN][1000 genomes]
rs11852472	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12101948	0.90[CEU][hapmap];0.92[JPT][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12594344	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13329104	0.88[ASW][hapmap];0.86[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.83[ASN][1000 genomes]
rs1823175	0.97[EUR][1000 genomes]
rs1838939	1.00[CEU][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1850260	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1850261	0.97[EUR][1000 genomes]
rs1964473	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1964474	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2002668	0.89[ASN][1000 genomes]
rs2004630	0.92[EUR][1000 genomes]
rs2004631	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2010392	0.96[EUR][1000 genomes]
rs2028948	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2405719	0.85[ASN][1000 genomes]
rs28615348	0.87[ASN][1000 genomes]
rs34243492	0.97[EUR][1000 genomes]
rs34611707	0.81[GIH][hapmap]
rs34909574	0.97[EUR][1000 genomes]
rs34951369	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35237189	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35880865	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3751536	0.96[CEU][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3845233	0.94[EUR][1000 genomes]
rs3845234	0.93[EUR][1000 genomes]
rs3850092	0.93[EUR][1000 genomes]
rs3861184	0.95[EUR][1000 genomes]
rs4503758	0.81[GIH][hapmap]
rs56290532	0.83[EUR][1000 genomes]
rs57181727	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60214227	0.85[ASN][1000 genomes]
rs66838310	0.96[EUR][1000 genomes]
rs8028002	0.81[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531903	chr15:75889302-76342128	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
2	nsv527186	chr15:75924443-76107730	Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	69 gene(s)	inside rSNPs	diseases
3	nsv974599	chr15:76033068-76101142	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
4	nsv904397	chr15:76072030-76119092	Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4886742	FBXO22	cis	parietal	SCAN
rs4886742	TBC1D21	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:76068600-76075200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:76071000-76072600	Weak transcription	HepG2	liver
3	chr15:76071800-76072200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr15:76071800-76072600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links