Variant report

Variant	rs57141604
Chromosome Location	chr18:43594027-43594028
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10468860	0.84[ASN][1000 genomes]
rs10502871	0.87[ASN][1000 genomes]
rs11082506	0.84[ASN][1000 genomes]
rs12604893	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12606939	0.87[ASN][1000 genomes]
rs12607686	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16978508	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16978509	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16978516	0.83[ASN][1000 genomes]
rs16978517	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1837213	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3745001	0.86[EUR][1000 genomes]
rs3897646	0.86[EUR][1000 genomes]
rs486424	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs488431	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4890310	0.87[ASN][1000 genomes]
rs4890612	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4890613	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4890614	0.88[ASN][1000 genomes]
rs4890615	0.87[ASN][1000 genomes]
rs55966192	0.86[ASN][1000 genomes]
rs567504	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs568448	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs593664	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs596415	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs610186	0.85[ASN][1000 genomes]
rs61423911	0.82[ASN][1000 genomes]
rs6507659	0.87[ASN][1000 genomes]
rs6507660	0.85[ASN][1000 genomes]
rs6507661	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6507662	0.87[ASN][1000 genomes]
rs654466	0.88[ASN][1000 genomes]
rs68061103	0.88[ASN][1000 genomes]
rs687526	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs688547	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7237813	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72642435	0.85[ASN][1000 genomes]
rs8097830	0.84[ASN][1000 genomes]
rs920295	0.85[EUR][1000 genomes]
rs9675392	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	nsv1062024	chr18:43589516-43749410	Active TSS Strong transcription Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv543694	chr18:43589516-43749410	Strong transcription Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

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	chr18:43568600-43596800	Weak transcription	Adipose Nuclei	Adipose
4	chr18:43568800-43607800	Weak transcription	Rectal Smooth Muscle	rectum
5	chr18:43571400-43622000	Weak transcription	Gastric	stomach
6	chr18:43574200-43597400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr18:43574200-43608000	Weak transcription	NHLF	lung
8	chr18:43574600-43608000	Weak transcription	Osteobl	bone
9	chr18:43583400-43607800	Weak transcription	Fetal Intestine Small	intestine
10	chr18:43583400-43608200	Weak transcription	Esophagus	oesophagus
11	chr18:43586200-43607600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr18:43587200-43599800	Weak transcription	Fetal Intestine Large	intestine
13	chr18:43588000-43607400	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr18:43589200-43599000	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr18:43589200-43607800	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr18:43590200-43594800	Weak transcription	Liver	Liver
17	chr18:43590400-43594800	Weak transcription	Lung	lung
18	chr18:43590800-43600600	Weak transcription	K562	blood
19	chr18:43590800-43601600	Weak transcription	Stomach Smooth Muscle	stomach
20	chr18:43590800-43607800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr18:43590800-43608000	Weak transcription	Primary T cells from cord blood	blood
22	chr18:43591000-43594400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr18:43591000-43595000	Weak transcription	Aorta	Aorta
24	chr18:43591000-43595000	Weak transcription	Spleen	Spleen
25	chr18:43591000-43600000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr18:43591000-43606200	Weak transcription	HMEC	breast
27	chr18:43591000-43607800	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr18:43591000-43607800	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr18:43591000-43608000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr18:43591000-43608000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr18:43591000-43608000	Weak transcription	Ovary	ovary
32	chr18:43591200-43595000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr18:43591200-43595200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr18:43591200-43607400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr18:43591600-43602200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr18:43591600-43608000	Weak transcription	NHEK	skin
37	chr18:43592200-43594600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr18:43592600-43597000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr18:43593000-43594800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr18:43593000-43595000	Enhancers	Primary monocytes fromperipheralblood	blood
41	chr18:43593200-43594400	Enhancers	Primary hematopoietic stem cells short term culture	blood
42	chr18:43593200-43595000	Enhancers	GM12878-XiMat	blood
43	chr18:43593600-43594200	Enhancers	Primary hematopoietic stem cells	blood
44	chr18:43593800-43594800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr18:43593800-43595800	Strong transcription	Primary neutrophils fromperipheralblood	blood
46	chr18:43594000-43594400	Enhancers	Monocytes-CD14+_RO01746	blood
47	chr18:43594000-43595400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr18:43594000-43595800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr18:43594000-43597000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links