Variant report

Variant	rs10850733
Chromosome Location	chr12:117380961-117380962
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	chr12:117369126..117371183-chr12:117378864..117381589,2	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10732611	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10735099	0.81[EUR][1000 genomes]
rs10744886	0.82[EUR][1000 genomes]
rs10774892	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10774893	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10774896	0.92[EUR][1000 genomes]
rs10850741	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12299065	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2270794	0.85[ASN][1000 genomes]
rs2393110	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2393111	0.82[EUR][1000 genomes]
rs4074147	0.92[EUR][1000 genomes]
rs4076700	0.82[EUR][1000 genomes]
rs4077519	0.81[EUR][1000 genomes]
rs4130296	0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4238051	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4299000	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4522274	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4562925	0.96[EUR][1000 genomes]
rs4766812	0.84[EUR][1000 genomes]
rs4766814	0.84[EUR][1000 genomes]
rs4766815	0.83[EUR][1000 genomes]
rs4766818	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4766820	0.92[EUR][1000 genomes]
rs4767473	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4767474	0.83[EUR][1000 genomes]
rs4767476	0.96[EUR][1000 genomes]
rs4767478	0.82[EUR][1000 genomes]
rs4767480	0.82[EUR][1000 genomes]
rs4767482	0.92[EUR][1000 genomes]
rs4767490	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59348125	0.85[ASN][1000 genomes]
rs60940473	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6490102	0.92[EUR][1000 genomes]
rs7131746	0.91[EUR][1000 genomes]
rs7298447	0.90[EUR][1000 genomes]
rs7302025	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7303752	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7303882	0.82[EUR][1000 genomes]
rs7307907	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7311972	0.92[EUR][1000 genomes]
rs73403241	0.80[EUR][1000 genomes]
rs7484620	0.83[EUR][1000 genomes]
rs7952766	0.80[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7954600	0.85[ASN][1000 genomes]
rs7954824	0.92[EUR][1000 genomes]
rs7957907	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7962339	0.85[ASN][1000 genomes]
rs7973925	0.85[ASN][1000 genomes]
rs7976815	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7979277	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9308	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9804817	0.94[EUR][1000 genomes];0.80[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	nsv832524	chr12:117314110-117496576	Weak transcription Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1046811	chr12:117353904-117396230	Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	n/a
3	esv1798657	chr12:117354067-117392259	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	5 gene(s)	inside rSNPs	n/a
4	nsv1048942	chr12:117365506-117400588	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10850733	FBXW8	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:117354800-117383200	Weak transcription	Esophagus	oesophagus
2	chr12:117358400-117392600	Weak transcription	Small Intestine	intestine
3	chr12:117363200-117399400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr12:117363400-117381000	Weak transcription	NHEK	skin
5	chr12:117363400-117381400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr12:117363400-117385000	Weak transcription	HUVEC	blood vessel
7	chr12:117365000-117383200	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr12:117365000-117383400	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr12:117365000-117406000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr12:117365800-117381200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr12:117365800-117383800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr12:117366600-117381000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr12:117366600-117381200	Weak transcription	Liver	Liver
14	chr12:117366600-117381400	Weak transcription	Aorta	Aorta
15	chr12:117366600-117383200	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr12:117366600-117388400	Weak transcription	K562	blood
17	chr12:117367800-117382800	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr12:117368000-117381200	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr12:117368000-117383200	Weak transcription	Hela-S3	cervix
20	chr12:117368000-117383400	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr12:117368200-117383000	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr12:117368800-117381400	Weak transcription	Adipose Nuclei	Adipose
23	chr12:117369800-117383200	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr12:117370000-117382000	Weak transcription	Monocytes-CD14+_RO01746	blood
25	chr12:117371400-117381000	Weak transcription	Brain Hippocampus Middle	brain
26	chr12:117371400-117381200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr12:117371400-117381200	Weak transcription	Brain Substantia Nigra	brain
28	chr12:117371400-117381600	Weak transcription	Brain Anterior Caudate	brain
29	chr12:117371400-117383400	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr12:117371400-117383400	Weak transcription	Stomach Smooth Muscle	stomach
31	chr12:117371800-117381000	Weak transcription	Brain Germinal Matrix	brain
32	chr12:117372400-117381400	Weak transcription	Pancreatic Islets	Pancreatic Islet
33	chr12:117372400-117383000	Weak transcription	NH-A	brain
34	chr12:117373000-117383200	Weak transcription	Fetal Brain Male	brain
35	chr12:117373400-117381200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr12:117373400-117383200	Weak transcription	Right Ventricle	heart
37	chr12:117373800-117393200	Weak transcription	Stomach Mucosa	stomach
38	chr12:117374200-117381000	Weak transcription	A549	lung
39	chr12:117374200-117381400	Weak transcription	Pancreas	Pancrea
40	chr12:117374200-117382200	Weak transcription	Right Atrium	heart
41	chr12:117374400-117381000	Weak transcription	HUES48 Cell Line	embryonic stem cell
42	chr12:117374400-117381200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
43	chr12:117374400-117381200	Weak transcription	Colonic Mucosa	Colon
44	chr12:117374400-117381400	Weak transcription	NHLF	lung
45	chr12:117374400-117385600	Weak transcription	NHDF-Ad	bronchial
46	chr12:117374600-117381000	Weak transcription	Primary T helper cells fromperipheralblood	blood
47	chr12:117374600-117381200	Weak transcription	Placenta	Placenta
48	chr12:117374800-117381000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr12:117374800-117381200	Weak transcription	Osteobl	bone
50	chr12:117375000-117381000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links