Variant report

Variant	rs55902158
Chromosome Location	chr6:140320674-140320675
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	chr6:139694138..139697415-chr6:140319794..140322327,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs10499217	0.87[EUR][1000 genomes]
rs10499218	0.85[EUR][1000 genomes]
rs11751210	0.85[EUR][1000 genomes]
rs11753982	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11754152	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11754864	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11755397	0.89[EUR][1000 genomes]
rs11758188	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11758612	0.92[EUR][1000 genomes]
rs11758718	0.84[EUR][1000 genomes]
rs11759030	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1324127	0.84[EUR][1000 genomes]
rs1324129	0.84[EUR][1000 genomes]
rs13437498	0.91[EUR][1000 genomes]
rs1361247	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1582145	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17069692	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17214668	0.82[EUR][1000 genomes]
rs17755520	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17755892	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17756503	0.87[EUR][1000 genomes]
rs17756562	0.85[EUR][1000 genomes]
rs17756688	0.85[EUR][1000 genomes]
rs17811661	0.91[EUR][1000 genomes]
rs17811691	0.91[EUR][1000 genomes]
rs17811871	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17812354	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17812384	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17812480	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17812617	0.91[EUR][1000 genomes]
rs17812647	0.92[EUR][1000 genomes]
rs17812736	0.89[EUR][1000 genomes]
rs1933741	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs201279	0.82[EUR][1000 genomes]
rs201280	0.83[EUR][1000 genomes]
rs35441484	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs477737	0.84[EUR][1000 genomes]
rs4895580	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4895581	0.86[EUR][1000 genomes]
rs4896502	0.91[EUR][1000 genomes]
rs4896504	0.85[EUR][1000 genomes]
rs496953	0.82[EUR][1000 genomes]
rs55732492	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs55738757	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55834276	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55907136	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56022257	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56030520	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56202454	0.88[EUR][1000 genomes]
rs56296431	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs58650930	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs593265	0.91[EUR][1000 genomes]
rs59665575	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs597854	0.91[EUR][1000 genomes]
rs608185	0.91[EUR][1000 genomes]
rs615587	0.91[EUR][1000 genomes]
rs638899	0.91[EUR][1000 genomes]
rs645740	0.91[EUR][1000 genomes]
rs656337	0.91[EUR][1000 genomes]
rs656363	0.91[EUR][1000 genomes]
rs657276	0.91[EUR][1000 genomes]
rs659714	0.84[EUR][1000 genomes]
rs661507	0.91[EUR][1000 genomes]
rs671038	0.91[EUR][1000 genomes]
rs6925609	0.87[EUR][1000 genomes]
rs72975808	0.82[EUR][1000 genomes]
rs72988718	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72988720	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72988721	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72988724	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72988734	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72988736	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72988741	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72988745	0.88[EUR][1000 genomes]
rs72988750	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72988752	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72988753	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72988755	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72988756	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72988758	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72988759	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72988761	0.92[EUR][1000 genomes]
rs72990622	0.87[EUR][1000 genomes]
rs72990629	0.87[EUR][1000 genomes]
rs7769264	0.84[EUR][1000 genomes]
rs9484333	0.89[EUR][1000 genomes]
rs9495619	0.88[EUR][1000 genomes]
rs9495621	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs953112	0.89[EUR][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	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv1016532	chr6:140174639-141029988	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1019508	chr6:140317472-140434466	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140312600-140322200	Weak transcription	NHDF-Ad	bronchial
2	chr6:140312800-140322200	Weak transcription	NHLF	lung
3	chr6:140312800-140322600	Weak transcription	Ovary	ovary
4	chr6:140317800-140321000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:140317800-140321400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr6:140317800-140324000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:140318000-140322200	Weak transcription	Osteobl	bone
8	chr6:140318400-140322200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr6:140318400-140322800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr6:140318800-140322200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:140320200-140323600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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