Variant report

Variant	rs6852570
Chromosome Location	chr4:143700358-143700359
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:143394255..143395855-chr4:143697810..143700529,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109452	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10024696	0.91[EUR][1000 genomes]
rs10857399	0.96[CEU][hapmap];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11100754	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[YRI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11100760	0.89[EUR][1000 genomes]
rs11723982	0.80[ASN][1000 genomes]
rs11933763	0.88[EUR][1000 genomes]
rs11943397	0.81[JPT][hapmap]
rs12233703	0.85[EUR][1000 genomes]
rs12509304	0.81[ASN][1000 genomes]
rs12640389	0.91[EUR][1000 genomes]
rs12644329	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13117185	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs13141925	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13435565	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1372239	0.85[CHB][hapmap]
rs1373031	0.91[EUR][1000 genomes]
rs1373032	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1373036	0.85[CHB][hapmap]
rs1441418	0.81[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs1443183	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1443185	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1443186	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1443187	0.84[CEU][hapmap]
rs1465962	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17016777	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17016779	0.81[ASN][1000 genomes]
rs179508	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1822360	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1822361	0.91[EUR][1000 genomes]
rs1838082	0.91[EUR][1000 genomes]
rs1867214	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1899565	0.81[JPT][hapmap]
rs191762	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1961836	0.85[EUR][1000 genomes]
rs1965828	0.91[EUR][1000 genomes]
rs2120158	0.81[JPT][hapmap]
rs2165819	0.81[ASN][1000 genomes]
rs2218240	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs2589994	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28420913	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3113593	0.82[EUR][1000 genomes]
rs331939	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs331940	0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs331942	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs331948	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs331949	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs331950	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs331951	0.82[EUR][1000 genomes]
rs331953	0.80[ASN][1000 genomes]
rs331957	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs331963	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs331966	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34442253	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4690698	0.92[CHB][hapmap];0.88[JPT][hapmap]
rs4690699	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4690726	0.91[EUR][1000 genomes]
rs4690728	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs4690730	0.93[CHB][hapmap];0.88[JPT][hapmap]
rs6537124	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6537127	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6811022	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6813458	0.94[EUR][1000 genomes]
rs6816424	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6819498	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6831927	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6844306	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6845583	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72728667	0.81[ASN][1000 genomes]
rs7376475	0.86[EUR][1000 genomes]
rs7667183	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7688275	0.80[EUR][1000 genomes]
rs966457	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9994364	0.80[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap]

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	nsv595606	chr4:143631691-143729595	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv880174	chr4:143639498-143848024	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 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	chr4:143684200-143706000	Weak transcription	Fetal Heart	heart
2	chr4:143698200-143701200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr4:143698400-143719000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr4:143698800-143704600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr4:143698800-143738600	Weak transcription	Aorta	Aorta
6	chr4:143699000-143714600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr4:143699200-143700600	Enhancers	Osteobl	bone
8	chr4:143699400-143700400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr4:143700000-143700400	Enhancers	Rectal Smooth Muscle	rectum
10	chr4:143700200-143700400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr4:143700200-143701600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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