Variant report

Variant	rs3116433
Chromosome Location	chr1:84881095-84881096
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs11163955	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11163957	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11163958	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11163959	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11163960	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11163963	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11578928	0.90[CHB][hapmap]
rs12027418	0.80[CEU][hapmap];0.86[YRI][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12029581	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12029668	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12030472	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12032962	0.87[ASN][1000 genomes]
rs12034438	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12036961	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12042338	0.81[ASN][1000 genomes]
rs12123671	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1246386	0.90[JPT][hapmap]
rs1246392	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12740453	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1340595	0.91[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs1506699	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1506700	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1542963	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17131659	0.90[JPT][hapmap]
rs1971350	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1981254	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1995643	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2063037	0.87[ASN][1000 genomes]
rs2066197	0.90[ASN][1000 genomes]
rs2104210	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2185486	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2389723	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3116415	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3116435	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3117747	0.90[JPT][hapmap]
rs3121147	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35459071	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3768253	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3813608	1.00[JPT][hapmap]
rs3956461	0.90[JPT][hapmap]
rs472601	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4907063	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4907064	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4907070	0.89[ASN][1000 genomes]
rs507772	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs511339	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs528310	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs553775	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs601564	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6576700	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6576701	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6576702	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6576708	0.87[ASN][1000 genomes]
rs6663802	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs676987	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs679725	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs925014	0.87[ASN][1000 genomes]
rs937840	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830437	chr1:84837524-85001269	Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv946035	chr1:84880590-84881518	Enhancers Weak transcription	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:84878600-84883200	Weak transcription	Psoas Muscle	Psoas
2	chr1:84880200-84881600	Enhancers	HUVEC	blood vessel
3	chr1:84880800-84881200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr1:84880800-84881200	Enhancers	Muscle Satellite Cultured Cells	--
5	chr1:84880800-84881200	Enhancers	Hela-S3	cervix
6	chr1:84881000-84881400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr1:84881000-84881600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr1:84881000-84881600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr1:84881000-84881600	Enhancers	Osteobl	bone

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