Variant report

Variant	rs2084565
Chromosome Location	chr3:24178953-24178954
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24175902..24178335-chr3:24178418..24180590,2	MCF-7	breast:
2	chr3:24176023..24178197-chr3:24178620..24181461,2	K562	blood:
3	chr3:24178878..24181434-chr3:24185620..24188715,3	K562	blood:

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

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10428188	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11710330	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11718010	0.85[EUR][1000 genomes]
rs2278802	0.88[EUR][1000 genomes]
rs3752874	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772381	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3821440	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55640600	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59417168	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73825924	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv834639	chr3:24037113-24233925	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24156400-24187800	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr3:24165800-24179000	Weak transcription	Duodenum Mucosa	Duodenum
3	chr3:24167000-24197800	Weak transcription	K562	blood
4	chr3:24167800-24187800	Weak transcription	Small Intestine	intestine
5	chr3:24168600-24179200	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:24168800-24181200	Weak transcription	Brain Angular Gyrus	brain
7	chr3:24169000-24187800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr3:24169800-24186200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:24170800-24184600	Weak transcription	Brain Anterior Caudate	brain
10	chr3:24171400-24186200	Strong transcription	Fetal Intestine Large	intestine
11	chr3:24171600-24179200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr3:24173000-24187400	Weak transcription	Fetal Brain Male	brain
13	chr3:24173600-24179000	Weak transcription	HepG2	liver
14	chr3:24173600-24179400	Weak transcription	Esophagus	oesophagus
15	chr3:24173600-24188200	Weak transcription	Primary hematopoietic stem cells	blood
16	chr3:24173800-24183200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr3:24174000-24183400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr3:24174200-24182800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr3:24174400-24184800	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr3:24175400-24179000	Weak transcription	Left Ventricle	heart
21	chr3:24175800-24187800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr3:24176400-24179000	Weak transcription	Lung	lung
23	chr3:24176400-24179400	Weak transcription	Liver	Liver
24	chr3:24176600-24179000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr3:24176800-24179000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr3:24176800-24179000	Weak transcription	Pancreas	Pancrea
27	chr3:24176800-24186400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr3:24177000-24179200	Weak transcription	Fetal Stomach	stomach
29	chr3:24177000-24179400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr3:24177200-24186200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr3:24177200-24186200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr3:24177200-24186200	Weak transcription	Placenta	Placenta
33	chr3:24177800-24181800	Enhancers	Colon Smooth Muscle	Colon
34	chr3:24178200-24179400	Enhancers	Muscle Satellite Cultured Cells	--
35	chr3:24178200-24179400	Enhancers	HSMM	muscle
36	chr3:24178200-24179800	Enhancers	Rectal Mucosa Donor 31	rectum
37	chr3:24178200-24179800	Enhancers	Spleen	Spleen
38	chr3:24178200-24180200	Enhancers	Hela-S3	cervix
39	chr3:24178200-24180400	Enhancers	Stomach Mucosa	stomach
40	chr3:24178200-24180600	Genic enhancers	Aorta	Aorta
41	chr3:24178400-24179000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
42	chr3:24178400-24179000	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr3:24178400-24179000	Strong transcription	Fetal Intestine Small	intestine
44	chr3:24178400-24179000	Weak transcription	Gastric	stomach
45	chr3:24178400-24179000	Enhancers	Skeletal Muscle Male	skeletal muscle
46	chr3:24178400-24179200	Weak transcription	HSMMtube	muscle
47	chr3:24178400-24183800	Enhancers	Rectal Smooth Muscle	rectum
48	chr3:24178400-24186200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr3:24178600-24179000	Enhancers	NHLF	lung
50	chr3:24178600-24179800	Enhancers	Placenta Amnion	Placenta Amnion

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