Variant report

Variant	rs7490919
Chromosome Location	chr13:52919065-52919066
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:52917718..52921216-chr13:53022914..53025768,5	MCF-7	breast:
2	chr13:52917796..52919979-chr13:52922029..52924038,2	MCF-7	breast:
3	chr13:52917157..52919301-chr13:53024221..53025626,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136100	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs7324358	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7331402	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73484021	0.81[AMR][1000 genomes]
rs7400666	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7490724	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv934070	chr13:52362588-53174923	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
2	nsv1040931	chr13:52564792-53350914	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
3	nsv541773	chr13:52564792-53350914	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
4	nsv428288	chr13:52728370-53068132	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	nsv819887	chr13:52772113-52926921	Enhancers Active TSS Flanking Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv900084	chr13:52835231-53119704	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv977385	chr13:52918841-52936623	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:52917600-52920400	Enhancers	Osteobl	bone
2	chr13:52917800-52920400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr13:52917800-52922000	Weak transcription	A549	lung
4	chr13:52918000-52919200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr13:52918200-52919200	Weak transcription	NH-A	brain
6	chr13:52918200-52920400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr13:52918200-52920600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr13:52918400-52920600	Enhancers	Muscle Satellite Cultured Cells	--
9	chr13:52918600-52919400	Weak transcription	NHDF-Ad	bronchial
10	chr13:52918600-52919600	Enhancers	NHLF	lung
11	chr13:52918600-52919800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr13:52918600-52920000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr13:52918800-52919200	Enhancers	NHEK	skin
14	chr13:52918800-52920400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr13:52918800-52920800	Enhancers	HSMMtube	muscle
16	chr13:52918800-52924000	Enhancers	HSMM	muscle
17	chr13:52918800-52924400	Enhancers	HMEC	breast
18	chr13:52919000-52919200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr13:52919000-52919200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr13:52919000-52920400	Enhancers	HUVEC	blood vessel

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