Variant report

Variant	rs1339963
Chromosome Location	chr1:216500830-216500831
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10779667	0.86[CEU][hapmap]
rs10864237	0.91[CEU][hapmap];0.85[EUR][1000 genomes]
rs10864238	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10864239	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap]
rs11117565	0.82[CEU][hapmap]
rs11120752	0.91[CEU][hapmap]
rs11120758	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11120762	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs11590382	1.00[JPT][hapmap]
rs12062586	0.91[CEU][hapmap]
rs1339962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1355630	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1398382	1.00[CEU][hapmap]
rs1538691	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs1578245	0.81[CEU][hapmap]
rs1588657	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1849376	0.90[CEU][hapmap];0.96[EUR][1000 genomes]
rs1996043	0.91[CEU][hapmap]
rs2669053	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs2809296	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs2809299	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4078266	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs4323773	0.87[CHB][hapmap];0.88[JPT][hapmap]
rs4531347	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs4575147	1.00[JPT][hapmap]
rs4846269	0.90[CEU][hapmap]
rs4846422	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs6604658	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6660228	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6664755	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs7521264	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7539376	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7539597	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs955942	1.00[JPT][hapmap]
rs974601	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

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	nsv1006504	chr1:215890460-216642124	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv535288	chr1:215890460-216642124	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv549199	chr1:216384908-216814702	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:216499400-216503200	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr1:216499800-216503600	Weak transcription	HMEC	breast
3	chr1:216500000-216503600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr1:216500000-216503600	Weak transcription	NHEK	skin

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