Variant report

Variant	rs73231937
Chromosome Location	chr3:136607198-136607199
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:136597721..136599414-chr3:136607033..136609685,2	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1048145	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17301365	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35127615	0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs56308712	0.95[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs59361983	0.87[EUR][1000 genomes]
rs67546863	0.87[EUR][1000 genomes]
rs67923745	0.87[EUR][1000 genomes]
rs73230052	0.83[EUR][1000 genomes]
rs73230077	0.95[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs73230078	0.95[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs73230095	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73231917	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73231943	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73231944	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73231953	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73231958	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73231966	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73231974	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73231975	1.00[AMR][1000 genomes];0.89[EUR][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	nsv877531	chr3:136517016-136662954	Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
2	nsv877532	chr3:136526939-136662603	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	nsv877533	chr3:136539689-136662954	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs73231937	IL20RB	cis	Nerve Tibial	GTEx

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136582400-136612600	Weak transcription	Pancreas	Pancrea
2	chr3:136582600-136612600	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:136582600-136612600	Weak transcription	NH-A	brain
4	chr3:136582600-136612600	Weak transcription	Osteobl	bone
5	chr3:136582800-136609400	Weak transcription	NHEK	skin
6	chr3:136582800-136609600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:136582800-136609800	Weak transcription	HMEC	breast
8	chr3:136582800-136612800	Weak transcription	HSMM	muscle
9	chr3:136588000-136612600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr3:136588000-136612600	Weak transcription	Adipose Nuclei	Adipose
11	chr3:136588000-136612600	Weak transcription	Ovary	ovary
12	chr3:136588400-136608800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr3:136588400-136609600	Weak transcription	Liver	Liver
14	chr3:136588600-136612600	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr3:136589800-136609000	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr3:136591800-136612600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr3:136592000-136608600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr3:136592000-136612600	Weak transcription	Left Ventricle	heart
19	chr3:136592000-136622400	Weak transcription	Aorta	Aorta
20	chr3:136592200-136608600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr3:136592600-136608000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr3:136592600-136609000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr3:136592800-136608000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr3:136592800-136609800	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr3:136593400-136608000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr3:136593600-136607800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr3:136593600-136608800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr3:136593800-136619600	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr3:136594000-136609600	Weak transcription	HepG2	liver
30	chr3:136594000-136612400	Weak transcription	Hela-S3	cervix
31	chr3:136598400-136607200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr3:136598400-136609600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr3:136601200-136613000	Weak transcription	Esophagus	oesophagus
34	chr3:136602200-136607800	Weak transcription	Fetal Intestine Small	intestine
35	chr3:136602200-136608800	Weak transcription	Lung	lung
36	chr3:136602200-136611800	Weak transcription	Right Atrium	heart
37	chr3:136602600-136609800	Weak transcription	Fetal Lung	lung
38	chr3:136603000-136617400	Weak transcription	Brain Angular Gyrus	brain
39	chr3:136603400-136608800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr3:136604200-136607800	Weak transcription	Fetal Stomach	stomach
41	chr3:136604400-136612600	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr3:136604400-136612800	Weak transcription	Spleen	Spleen
43	chr3:136604600-136607600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr3:136604600-136612600	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr3:136605000-136608800	Weak transcription	Stomach Smooth Muscle	stomach
46	chr3:136605200-136607200	Weak transcription	Primary B cells from peripheral blood	blood
47	chr3:136605200-136607400	Enhancers	Primary T cells from cord blood	blood
48	chr3:136605200-136608000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
49	chr3:136605200-136608000	Enhancers	Primary T helper cells PMA-I stimulated	--
50	chr3:136605400-136607800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links