Variant report

Variant	rs10479394
Chromosome Location	chr5:106399012-106399013
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10060196	0.88[ASN][1000 genomes]
rs11242625	0.88[ASN][1000 genomes]
rs11242626	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11949192	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11960038	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12522490	0.86[ASN][1000 genomes]
rs12522515	0.86[ASN][1000 genomes]
rs12658379	0.82[ASN][1000 genomes]
rs1345636	0.82[ASN][1000 genomes]
rs1345637	0.88[ASN][1000 genomes]
rs1549175	0.87[ASN][1000 genomes]
rs17384663	0.82[ASN][1000 genomes]
rs2410933	0.80[ASN][1000 genomes]
rs2410935	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2410938	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2410939	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2410940	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2410941	0.84[ASN][1000 genomes]
rs2410943	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2410945	0.88[ASN][1000 genomes]
rs2410946	0.87[ASN][1000 genomes]
rs2410947	0.88[ASN][1000 genomes]
rs2410948	0.88[ASN][1000 genomes]
rs2410949	0.88[ASN][1000 genomes]
rs2410952	0.89[ASN][1000 genomes]
rs4245993	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4429838	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4524495	0.96[ASN][1000 genomes]
rs4535439	0.95[ASN][1000 genomes]
rs4557390	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4631165	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4637535	0.88[ASN][1000 genomes]
rs4957530	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4957685	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4957690	0.84[ASN][1000 genomes]
rs55689542	0.85[ASN][1000 genomes]
rs58196349	0.95[ASN][1000 genomes]
rs6596717	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6596719	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6596720	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6596721	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6596722	0.83[CEU][hapmap];1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs6864971	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6866458	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6870023	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6871050	0.86[ASN][1000 genomes]
rs6871532	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6878038	0.80[ASN][1000 genomes]
rs6884885	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6885021	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6887291	0.89[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6892104	0.86[ASN][1000 genomes]
rs7706390	0.88[ASN][1000 genomes]
rs7710297	0.86[ASN][1000 genomes]
rs7733658	0.87[ASN][1000 genomes]
rs7736860	0.83[AMR][1000 genomes];0.89[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	nsv1030118	chr5:106006097-106847949	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv882679	chr5:106263197-106399718	Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv823170	chr5:106326293-106673695	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106396800-106402000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr5:106397000-106403000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr5:106398600-106400000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr5:106398800-106399400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr5:106398800-106399800	Enhancers	NHEK	skin
6	chr5:106399000-106399600	Enhancers	Placenta Amnion	Placenta Amnion

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