Variant report

Variant	rs4890612
Chromosome Location	chr18:43587457-43587458
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	chr18:43580506..43582779-chr18:43587364..43589939,2	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10468858	0.86[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs10468859	0.85[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs10468860	0.95[CHB][hapmap];0.91[JPT][hapmap];0.96[ASN][1000 genomes]
rs10468978	0.85[ASN][1000 genomes]
rs10468980	0.91[CHB][hapmap];0.87[JPT][hapmap];0.87[ASN][1000 genomes]
rs12604893	0.89[EUR][1000 genomes]
rs12607686	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs16978508	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16978509	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16978517	1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1837213	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2276196	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs2276197	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs2276199	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs3745001	0.85[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes]
rs3844540	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs3897646	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs486424	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs488431	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4890613	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4890614	0.82[JPT][hapmap]
rs55966192	0.99[ASN][1000 genomes]
rs567504	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs568448	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57141604	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs593664	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs596415	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs610186	0.83[JPT][hapmap]
rs6507659	1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs6507661	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs654466	0.82[JPT][hapmap]
rs687526	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs688547	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7227161	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs7237813	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7240441	0.88[JPT][hapmap]
rs7242970	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs72642435	0.97[ASN][1000 genomes]
rs920295	0.86[EUR][1000 genomes]
rs9675392	0.91[CHB][hapmap];0.91[JPT][hapmap];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv2277	chr18:43543715-43588579	Enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv1064882	chr18:43558343-43687674	Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv543693	chr18:43558343-43687674	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4890612	EPG5	cis	Whole Blood	GTEx

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:43558800-43608000	Weak transcription	Pancreas	Pancrea
2	chr18:43560400-43597600	Weak transcription	Left Ventricle	heart
3	chr18:43560600-43591600	Weak transcription	Duodenum Mucosa	Duodenum
4	chr18:43563400-43592000	Weak transcription	Psoas Muscle	Psoas
5	chr18:43565400-43588800	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr18:43565400-43590800	Weak transcription	Colon Smooth Muscle	Colon
7	chr18:43565600-43588800	Weak transcription	Stomach Smooth Muscle	stomach
8	chr18:43567800-43588800	Weak transcription	NHEK	skin
9	chr18:43568600-43596800	Weak transcription	Adipose Nuclei	Adipose
10	chr18:43568800-43588600	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr18:43568800-43607800	Weak transcription	Rectal Smooth Muscle	rectum
12	chr18:43569400-43588800	Weak transcription	Fetal Stomach	stomach
13	chr18:43570200-43588800	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr18:43571400-43622000	Weak transcription	Gastric	stomach
15	chr18:43574200-43590000	Weak transcription	HMEC	breast
16	chr18:43574200-43592000	Weak transcription	NH-A	brain
17	chr18:43574200-43593200	Weak transcription	NHDF-Ad	bronchial
18	chr18:43574200-43597400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr18:43574200-43608000	Weak transcription	NHLF	lung
20	chr18:43574600-43608000	Weak transcription	Osteobl	bone
21	chr18:43576600-43588800	Weak transcription	Ovary	ovary
22	chr18:43577000-43589600	Weak transcription	Liver	Liver
23	chr18:43579000-43588600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr18:43579800-43589400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr18:43580000-43592600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr18:43580600-43587800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr18:43581400-43590200	Weak transcription	Primary T cells from cord blood	blood
28	chr18:43581400-43590600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr18:43581600-43589400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr18:43582200-43592600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
31	chr18:43582400-43588600	Weak transcription	Primary T helper cells PMA-I stimulated	--
32	chr18:43583200-43588600	Weak transcription	Primary hematopoietic stem cells	blood
33	chr18:43583200-43589400	Weak transcription	K562	blood
34	chr18:43583200-43590600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr18:43583400-43587600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr18:43583400-43587800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr18:43583400-43587800	Weak transcription	Aorta	Aorta
38	chr18:43583400-43588200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
39	chr18:43583400-43588600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr18:43583400-43590000	Weak transcription	Lung	lung
41	chr18:43583400-43607800	Weak transcription	Fetal Intestine Small	intestine
42	chr18:43583400-43608200	Weak transcription	Esophagus	oesophagus
43	chr18:43583600-43587800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr18:43583800-43591600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr18:43585400-43588800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr18:43586200-43588600	Weak transcription	Primary T helper cells fromperipheralblood	blood
47	chr18:43586200-43607600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr18:43586400-43587800	Strong transcription	Monocytes-CD14+_RO01746	blood
49	chr18:43586400-43590000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr18:43586600-43589400	Weak transcription	GM12878-XiMat	blood

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