Variant report

Variant	rs1900996
Chromosome Location	chr3:24168045-24168046
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:24162827..24165173-chr3:24166788..24169221,2	MCF-7	breast:
2	chr3:24159805..24161876-chr3:24167480..24170203,3	K562	blood:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11920383	1.00[EUR][1000 genomes]
rs11924501	1.00[EUR][1000 genomes]
rs11924778	1.00[EUR][1000 genomes]
rs17014086	1.00[EUR][1000 genomes]
rs17014087	1.00[EUR][1000 genomes]
rs1900997	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4377442	1.00[EUR][1000 genomes]
rs4467390	1.00[EUR][1000 genomes]
rs56259756	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56711878	1.00[EUR][1000 genomes]
rs58538965	1.00[EUR][1000 genomes]
rs58996984	1.00[EUR][1000 genomes]
rs59740610	1.00[EUR][1000 genomes]
rs60523116	1.00[EUR][1000 genomes]
rs60723945	1.00[EUR][1000 genomes]
rs61543192	1.00[EUR][1000 genomes]
rs6550843	1.00[EUR][1000 genomes]
rs73134545	1.00[EUR][1000 genomes]
rs73134552	1.00[EUR][1000 genomes]
rs73134553	1.00[EUR][1000 genomes]
rs73134559	1.00[EUR][1000 genomes]
rs73822689	1.00[EUR][1000 genomes]
rs73822697	1.00[EUR][1000 genomes]
rs73822701	1.00[EUR][1000 genomes]
rs73825908	1.00[EUR][1000 genomes]
rs73825915	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73825916	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73825917	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73825918	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73825919	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73825920	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7637983	1.00[EUR][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	chr3:24155800-24169600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:24156400-24187800	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr3:24157400-24173000	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr3:24158800-24169800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
5	chr3:24158800-24170200	Strong transcription	Liver	Liver
6	chr3:24159800-24168200	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr3:24159800-24169600	Weak transcription	Colon Smooth Muscle	Colon
8	chr3:24160000-24168200	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr3:24160400-24173000	Weak transcription	Primary hematopoietic stem cells	blood
10	chr3:24161000-24170200	Strong transcription	Fetal Intestine Small	intestine
11	chr3:24161200-24173000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr3:24161200-24176400	Weak transcription	Pancreas	Pancrea
13	chr3:24161400-24169000	Weak transcription	Esophagus	oesophagus
14	chr3:24161400-24169600	Weak transcription	Gastric	stomach
15	chr3:24161400-24169600	Weak transcription	Lung	lung
16	chr3:24161400-24170600	Weak transcription	Psoas Muscle	Psoas
17	chr3:24161800-24173000	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr3:24162000-24168200	Weak transcription	Brain Angular Gyrus	brain
19	chr3:24162400-24170000	Weak transcription	Rectal Smooth Muscle	rectum
20	chr3:24162600-24168200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr3:24162800-24178200	Weak transcription	Spleen	Spleen
22	chr3:24163000-24168400	Weak transcription	HepG2	liver
23	chr3:24164400-24169600	Weak transcription	Left Ventricle	heart
24	chr3:24165000-24168200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr3:24165000-24173400	Weak transcription	Right Ventricle	heart
26	chr3:24165200-24168200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr3:24165200-24168200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr3:24165200-24169600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr3:24165200-24169600	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr3:24165200-24173200	Weak transcription	Placenta	Placenta
31	chr3:24165400-24168800	Weak transcription	Hela-S3	cervix
32	chr3:24165400-24169400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr3:24165400-24169400	Weak transcription	HMEC	breast
34	chr3:24165600-24168200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr3:24165600-24169400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr3:24165600-24169600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr3:24165600-24169600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr3:24165600-24169600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr3:24165600-24169600	Weak transcription	Right Atrium	heart
40	chr3:24165600-24170000	Weak transcription	Osteobl	bone
41	chr3:24165800-24168200	Weak transcription	Fetal Intestine Large	intestine
42	chr3:24165800-24169000	Weak transcription	NHLF	lung
43	chr3:24165800-24169200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr3:24165800-24169400	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr3:24165800-24169800	Weak transcription	HSMM	muscle
46	chr3:24165800-24169800	Weak transcription	HSMMtube	muscle
47	chr3:24165800-24171400	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr3:24165800-24179000	Weak transcription	Duodenum Mucosa	Duodenum
49	chr3:24166400-24169400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr3:24166400-24169600	Weak transcription	NHDF-Ad	bronchial

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