Variant report

Variant	rs494207
Chromosome Location	chr10:44741256-44741257
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:44731978..44732983-chr10:44740097..44741426,10	MCF-7	breast:

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs10899998	0.87[EUR][1000 genomes]
rs11238889	1.00[CEU][hapmap]
rs11238890	1.00[CEU][hapmap]
rs11238909	0.87[EUR][1000 genomes]
rs11592445	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs1159931	0.81[JPT][hapmap]
rs1619661	0.82[EUR][1000 genomes]
rs1704217	0.82[EUR][1000 genomes]
rs1704218	0.82[EUR][1000 genomes]
rs1746042	0.82[EUR][1000 genomes]
rs1746043	0.87[YRI][hapmap]
rs1746044	0.83[EUR][1000 genomes]
rs1746047	0.90[ASN][1000 genomes]
rs1746052	0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2209065	0.81[JPT][hapmap]
rs2576354	0.99[ASN][1000 genomes]
rs2576355	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2760670	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2781543	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs473501	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs474281	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs486234	0.88[AFR][1000 genomes]
rs487465	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs492152	0.95[ASN][1000 genomes]
rs498810	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs501120	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs504799	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs510785	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs513391	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs518594	0.94[ASN][1000 genomes]
rs522293	0.95[ASN][1000 genomes]
rs523297	0.82[EUR][1000 genomes]
rs534079	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs535176	0.99[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs535949	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs541483	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs545025	0.84[EUR][1000 genomes]
rs546659	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs554565	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs556434	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs559469	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs559580	0.95[ASN][1000 genomes]
rs573141	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs579058	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs583489	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs587375	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs589655	0.86[EUR][1000 genomes]
rs596152	0.82[EUR][1000 genomes]
rs604674	0.95[ASN][1000 genomes]
rs605414	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs605445	0.95[ASN][1000 genomes]
rs606314	0.86[EUR][1000 genomes]
rs607363	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs607592	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs607609	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs607760	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs617019	0.84[EUR][1000 genomes]
rs617035	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs617481	0.87[AFR][1000 genomes]
rs617542	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs620356	0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs620828	0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs622472	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs622956	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs629213	0.84[EUR][1000 genomes]
rs631414	0.86[AFR][1000 genomes]
rs634963	0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs635612	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs646890	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs649192	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs661697	0.84[EUR][1000 genomes]
rs665855	0.95[ASN][1000 genomes]
rs670056	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs671765	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs673354	0.82[EUR][1000 genomes]
rs674746	0.82[EUR][1000 genomes]
rs676966	0.84[EUR][1000 genomes]
rs677465	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs680091	0.84[EUR][1000 genomes]
rs683297	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs684196	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs684521	0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs684666	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs687175	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs694425	0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7079375	0.82[EUR][1000 genomes]
rs7082209	0.95[JPT][hapmap]
rs800330	0.95[JPT][hapmap]
rs88796	0.86[AFR][1000 genomes]
rs915083	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[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	nsv1038511	chr10:44596885-44870030	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv508579	chr10:44709770-44799256	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 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	chr10:44738000-44745200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:44739200-44741400	Enhancers	HepG2	liver
3	chr10:44740200-44741400	Enhancers	Fetal Heart	heart
4	chr10:44740400-44745000	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr10:44741000-44745000	Weak transcription	Placenta	Placenta
6	chr10:44741200-44741400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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