Variant report

Variant	rs12637541
Chromosome Location	chr3:135675968-135675969
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:135675046..135677818-chr3:135681944..135685047,4	MCF-7	breast:
2	chr3:135674887..135676860-chr3:135678363..135680009,2	K562	blood:

Variant related genes	Relation type
ENSG00000241905	Chromatin interaction
ENSG00000073711	Chromatin interaction

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs12630389	0.98[ASN][1000 genomes]
rs12632791	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12633805	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13059064	0.83[ASN][1000 genomes]
rs13065499	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13069408	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13072433	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13072690	0.83[ASN][1000 genomes]
rs13072782	0.83[ASN][1000 genomes]
rs13075579	0.92[ASN][1000 genomes]
rs13078865	0.82[ASN][1000 genomes]
rs13084404	0.88[ASN][1000 genomes]
rs13092707	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13097172	0.88[ASN][1000 genomes]
rs13097176	0.81[ASN][1000 genomes]
rs13097267	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1523593	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1523598	0.88[ASN][1000 genomes]
rs1523599	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1523600	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16843560	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16843611	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2140450	0.83[ASN][1000 genomes]
rs2177407	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2400649	0.83[ASN][1000 genomes]
rs34447526	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35097316	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35209948	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35532770	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35946332	0.83[ASN][1000 genomes]
rs35961065	0.87[ASN][1000 genomes]
rs3946444	0.83[ASN][1000 genomes]
rs4075999	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4331626	0.82[ASN][1000 genomes]
rs4678224	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4678288	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4678432	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4678434	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4678435	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55873361	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56152207	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57594457	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60070757	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61791712	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61791714	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6439603	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6439605	0.82[ASN][1000 genomes]
rs6439609	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6439610	0.82[ASN][1000 genomes]
rs6439614	0.82[ASN][1000 genomes]
rs6439615	0.83[ASN][1000 genomes]
rs6439618	0.83[ASN][1000 genomes]
rs6439622	0.92[ASN][1000 genomes]
rs6439623	0.92[ASN][1000 genomes]
rs6439624	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6771950	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6775261	0.83[ASN][1000 genomes]
rs6779903	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6793273	0.82[ASN][1000 genomes]
rs6803786	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7433592	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7610302	0.83[ASN][1000 genomes]
rs7625177	0.83[ASN][1000 genomes]
rs7625607	0.85[ASN][1000 genomes]
rs7635621	0.83[ASN][1000 genomes]
rs7650079	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9289501	0.87[ASN][1000 genomes]
rs940229	0.83[ASN][1000 genomes]
rs9682712	0.83[ASN][1000 genomes]
rs9758578	0.91[ASN][1000 genomes]
rs9846554	0.82[ASN][1000 genomes]
rs9852009	0.83[ASN][1000 genomes]
rs9852169	0.83[ASN][1000 genomes]
rs9856799	0.83[ASN][1000 genomes]
rs9868239	0.83[ASN][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	nsv460860	chr3:135107678-135769006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv591829	chr3:135107678-135769006	Flanking Active TSS Strong transcription Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv829732	chr3:135561706-135756840	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	esv3374702	chr3:135649303-135686527	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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