Variant report

Variant	rs2798153
Chromosome Location	chr1:56989219-56989220
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1261412	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1261413	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1261414	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1319274	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1361823	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1777276	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56198059	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61772594	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56967000-57002000	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:56972400-56990800	Strong transcription	HSMM	muscle
3	chr1:56976400-56991600	Strong transcription	Fetal Stomach	stomach
4	chr1:56976800-56992400	Weak transcription	Brain Germinal Matrix	brain
5	chr1:56977200-56990600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr1:56977800-56991200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr1:56977800-56999200	Weak transcription	A549	lung
8	chr1:56978000-56991400	Weak transcription	Fetal Brain Male	brain
9	chr1:56978000-56992600	Weak transcription	Rectal Smooth Muscle	rectum
10	chr1:56979200-56992600	Strong transcription	HepG2	liver
11	chr1:56980600-56991600	Genic enhancers	Left Ventricle	heart
12	chr1:56982000-56989400	Weak transcription	Gastric	stomach
13	chr1:56982400-56989400	Weak transcription	Esophagus	oesophagus
14	chr1:56983000-56990000	Strong transcription	Fetal Muscle Leg	muscle
15	chr1:56983200-56989400	Weak transcription	Primary B cells from cord blood	blood
16	chr1:56983200-56991200	Strong transcription	Stomach Smooth Muscle	stomach
17	chr1:56983200-56991400	Strong transcription	Osteobl	bone
18	chr1:56983200-56992400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr1:56983400-56992200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr1:56983400-57000800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr1:56983600-56991200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr1:56983800-56991000	Strong transcription	Fetal Intestine Large	intestine
23	chr1:56983800-56991200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr1:56984000-56989400	Weak transcription	NH-A	brain
25	chr1:56984000-56990600	Weak transcription	Small Intestine	intestine
26	chr1:56984200-56992000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
27	chr1:56984200-56992200	Strong transcription	HUES48 Cell Line	embryonic stem cell
28	chr1:56984200-56992400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr1:56985000-56989400	Weak transcription	Colonic Mucosa	Colon
30	chr1:56985000-56993400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr1:56985000-56993600	Weak transcription	Fetal Brain Female	brain
32	chr1:56985400-56991400	Strong transcription	H1 Cell Line	embryonic stem cell
33	chr1:56985600-56990000	Strong transcription	Liver	Liver
34	chr1:56986000-56991600	Weak transcription	Colon Smooth Muscle	Colon
35	chr1:56986200-56990800	Strong transcription	Muscle Satellite Cultured Cells	--
36	chr1:56986200-56992600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
37	chr1:56986400-56990800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr1:56986400-56991000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr1:56986800-56990800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr1:56986800-56992000	Strong transcription	iPS-15b Cell Line	embryonic stem cell
41	chr1:56987000-56989600	Genic enhancers	Fetal Lung	lung
42	chr1:56987000-56990200	Genic enhancers	Fetal Thymus	thymus
43	chr1:56987000-56990400	Strong transcription	Sigmoid Colon	Sigmoid Colon
44	chr1:56987000-56990800	Strong transcription	NHLF	lung
45	chr1:56987000-56991000	Strong transcription	Duodenum Mucosa	Duodenum
46	chr1:56987000-56991400	Strong transcription	HUES64 Cell Line	embryonic stem cell
47	chr1:56987000-56991800	Strong transcription	HUES6 Cell Line	embryonic stem cell
48	chr1:56987000-57015000	Genic enhancers	NHDF-Ad	bronchial
49	chr1:56987200-56989400	Enhancers	Brain Cingulate Gyrus	brain
50	chr1:56987200-56989400	Enhancers	Thymus	Thymus

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