Variant report

Variant	rs16825675
Chromosome Location	chr1:186615995-186615996
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10489396	0.83[JPT][hapmap]
rs10489397	0.83[JPT][hapmap]
rs10798051	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10911877	1.00[CEU][hapmap];0.96[MEX][hapmap];0.90[TSI][hapmap]
rs10911878	0.82[CEU][hapmap]
rs10911890	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10911892	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10911895	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10911898	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10911899	0.80[ASN][1000 genomes]
rs10911900	0.93[AFR][1000 genomes]
rs10911901	0.93[AFR][1000 genomes]
rs11582183	1.00[CEU][hapmap];0.96[MEX][hapmap];0.90[TSI][hapmap]
rs11802553	0.82[ASN][1000 genomes]
rs11805124	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11808900	0.82[JPT][hapmap]
rs11810534	0.85[JPT][hapmap]
rs12076624	0.87[AFR][1000 genomes]
rs12087470	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12239058	0.82[ASN][1000 genomes]
rs12402521	1.00[CEU][hapmap]
rs12402603	0.93[AFR][1000 genomes]
rs12734267	0.80[ASN][1000 genomes]
rs12734420	0.82[ASN][1000 genomes]
rs16825639	0.81[ASN][1000 genomes]
rs16825646	0.81[ASN][1000 genomes]
rs16825671	0.82[ASN][1000 genomes]
rs16825681	0.82[ASN][1000 genomes]
rs16825687	0.81[ASN][1000 genomes]
rs1799957	1.00[CEU][hapmap]
rs2024761	1.00[CEU][hapmap]
rs20432	0.82[AFR][1000 genomes]
rs2143416	0.89[ASW][hapmap];0.82[LWK][hapmap];0.92[YRI][hapmap];0.80[AFR][1000 genomes]
rs2383508	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4140433	0.81[ASN][1000 genomes]
rs4648308	0.87[AFR][1000 genomes]
rs5275	0.83[ASW][hapmap]
rs6425038	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6659683	1.00[CEU][hapmap]
rs6672836	1.00[CEU][hapmap];0.83[GIH][hapmap];0.90[TSI][hapmap]
rs6677346	1.00[CEU][hapmap];0.83[GIH][hapmap];0.96[MEX][hapmap];0.97[TSI][hapmap]
rs6689065	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6698048	0.92[AFR][1000 genomes]
rs67816471	0.93[AFR][1000 genomes]
rs71634178	0.80[ASN][1000 genomes]
rs7518525	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7539054	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9783052	0.89[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	nsv1004481	chr1:186095854-186750968	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv535223	chr1:186095854-186750968	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv832059	chr1:186464932-186639125	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2762854	chr1:186547101-186847574	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv872590	chr1:186557453-187500338	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16825675	C1orf14	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:186613200-186617600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:186613600-186619400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr1:186614400-186619600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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