Variant report

Variant	rs2566984
Chromosome Location	chr3:113551800-113551801
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:113538794..113541088-chr3:113549599..113551887,2	MCF-7	breast:
2	chr3:113546118..113548286-chr3:113550163..113552651,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178075	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10804511	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2566981	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2566983	0.81[AFR][1000 genomes]
rs2566985	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4359785	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59292926	1.00[AMR][1000 genomes]
rs60238096	1.00[AMR][1000 genomes]
rs6781200	1.00[AMR][1000 genomes]
rs6799923	1.00[AMR][1000 genomes]
rs6800121	1.00[AMR][1000 genomes]
rs72952678	1.00[AMR][1000 genomes]
rs72952679	1.00[AMR][1000 genomes]
rs72952680	1.00[AMR][1000 genomes]
rs72952687	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72954664	1.00[AMR][1000 genomes]
rs72954670	1.00[AMR][1000 genomes]
rs72954674	1.00[AMR][1000 genomes]
rs72954676	1.00[AMR][1000 genomes]
rs72954680	1.00[AMR][1000 genomes]
rs72954688	1.00[AMR][1000 genomes]
rs7628645	1.00[AMR][1000 genomes]
rs7646432	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7650388	1.00[AMR][1000 genomes]
rs7650416	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013506	chr3:112890608-113680951	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv482804	chr3:113432431-113581672	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv829678	chr3:113446177-113633053	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv877351	chr3:113450495-113637424	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv1013746	chr3:113460162-113646657	Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	nsv432478	chr3:113492402-113614489	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
7	nsv460822	chr3:113543081-113600970	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv591302	chr3:113543081-113600970	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:113548600-113552600	Enhancers	HepG2	liver
2	chr3:113549400-113557600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:113549600-113557000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr3:113549800-113557600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr3:113549800-113557600	Weak transcription	NHDF-Ad	bronchial
6	chr3:113550000-113553000	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr3:113550000-113554200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:113550000-113554200	Weak transcription	Stomach Mucosa	stomach
9	chr3:113550000-113557200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr3:113550000-113557400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr3:113550000-113557600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr3:113550000-113557600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:113550200-113553800	Weak transcription	NHEK	skin
14	chr3:113550600-113553800	Weak transcription	Hela-S3	cervix
15	chr3:113550800-113552600	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr3:113551000-113552200	Enhancers	Primary B cells from peripheral blood	blood
17	chr3:113551000-113552600	Enhancers	Primary T cells from cord blood	blood
18	chr3:113551200-113551800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:113551200-113551800	Flanking Active TSS	GM12878-XiMat	blood
20	chr3:113551200-113554000	Weak transcription	HUVEC	blood vessel
21	chr3:113551400-113551800	Enhancers	Primary hematopoietic stem cells short term culture	blood
22	chr3:113551400-113551800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
23	chr3:113551400-113551800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr3:113551400-113551800	Enhancers	HMEC	breast
25	chr3:113551400-113552600	Enhancers	Breast Myoepithelial Primary Cells	Breast
26	chr3:113551600-113551800	Enhancers	ES-I3 Cell Line	embryonic stem cell
27	chr3:113551600-113551800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr3:113551600-113551800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr3:113551600-113551800	Enhancers	Primary hematopoietic stem cells	blood
30	chr3:113551600-113551800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr3:113551600-113552000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr3:113551600-113552600	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr3:113551800-113552000	Weak transcription	Primary hematopoietic stem cells	blood
34	chr3:113551800-113552200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr3:113551800-113552600	Enhancers	GM12878-XiMat	blood
36	chr3:113551800-113554000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr3:113551800-113554200	Weak transcription	HMEC	breast
38	chr3:113551800-113557400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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