Variant report

Variant	rs852244
Chromosome Location	chr5:35923393-35923394
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:35777376..35779167-chr5:35921282..35923743,2	MCF-7	breast:
2	chr5:35777408..35778477-chr5:35922335..35923637,7	MCF-7	breast:
3	chr5:35775517..35778648-chr5:35922425..35925646,3	MCF-7	breast:
4	chr5:35815386..35815938-chr5:35922624..35923549,2	MCF-7	breast:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10491432	0.83[AFR][1000 genomes]
rs10491433	0.83[AFR][1000 genomes]
rs12055232	0.81[ASN][1000 genomes]
rs16902557	0.83[AFR][1000 genomes]
rs16902562	0.83[AFR][1000 genomes]
rs16902592	0.89[AFR][1000 genomes]
rs16902593	0.89[AFR][1000 genomes]
rs16902594	0.89[AFR][1000 genomes]
rs57498894	0.89[AFR][1000 genomes]
rs6870944	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73094019	0.83[AFR][1000 genomes]
rs73094022	0.83[AFR][1000 genomes]
rs7724777	0.84[AFR][1000 genomes]
rs852246	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs852251	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs852252	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs852253	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs860414	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs860416	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs863781	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471011	chr5:35861068-36003217	Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv830261	chr5:35863084-36018048	Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1025695	chr5:35902486-36036934	Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv4794	chr5:35906690-35934205	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:35915600-35924200	Weak transcription	Primary T cells from cord blood	blood
2	chr5:35919600-35924200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr5:35920000-35923400	Weak transcription	Osteobl	bone
4	chr5:35920000-35924000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr5:35920000-35924200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr5:35920000-35924600	Weak transcription	HSMMtube	muscle
7	chr5:35920200-35923400	Weak transcription	NHDF-Ad	bronchial
8	chr5:35920200-35923600	Weak transcription	HMEC	breast
9	chr5:35920200-35924000	Weak transcription	Hela-S3	cervix
10	chr5:35920400-35924000	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr5:35920400-35924200	Weak transcription	NHEK	skin
12	chr5:35920600-35924200	Enhancers	Dnd41	blood
13	chr5:35920600-35924400	Enhancers	Thymus	Thymus
14	chr5:35920800-35923600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr5:35920800-35924200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr5:35920800-35924400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr5:35921000-35924200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr5:35921600-35923400	Enhancers	Fetal Thymus	thymus
19	chr5:35922800-35924800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr5:35923000-35924400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr5:35923200-35923400	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr5:35923200-35925400	Enhancers	NHLF	lung

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