Variant report

Variant	rs9830627
Chromosome Location	chr3:49511526-49511527
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs11130201	0.94[AFR][1000 genomes]
rs11717485	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1522929	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1568663	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17080495	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17080510	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17080567	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17080664	0.97[AFR][1000 genomes]
rs1996874	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2131107	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2311794	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2311801	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2329024	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3870334	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3870340	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3912831	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4241409	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4452334	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4855856	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4855857	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4855870	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4855872	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4855874	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4855875	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4855876	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4855878	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4855879	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55808753	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55990645	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56101322	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56760510	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56897974	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59579780	0.92[AFR][1000 genomes]
rs60011446	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61749312	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446269	0.92[AFR][1000 genomes]
rs6446270	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446271	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446273	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446276	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446278	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446279	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446280	0.97[AFR][1000 genomes]
rs6446281	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6446282	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6446283	1.00[EUR][1000 genomes]
rs6766297	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6787665	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6793124	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6797164	1.00[AMR][1000 genomes]
rs73830703	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73830704	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73830705	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73830706	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73831434	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73831435	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73831436	1.00[EUR][1000 genomes]
rs73831437	1.00[EUR][1000 genomes]
rs73831438	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73831439	0.92[AFR][1000 genomes]
rs73831440	0.92[AFR][1000 genomes]
rs73831441	0.92[AFR][1000 genomes]
rs73831442	0.97[AFR][1000 genomes]
rs73834006	0.84[AFR][1000 genomes]
rs7646393	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8179172	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9311441	0.94[AFR][1000 genomes]
rs9837396	1.00[EUR][1000 genomes]
rs9849446	1.00[EUR][1000 genomes]
rs9861805	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9869504	1.00[EUR][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	nsv834687	chr3:49448632-49631788	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:49509400-49513600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr3:49509400-49514200	Weak transcription	Thymus	Thymus
3	chr3:49509400-49520200	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr3:49509600-49513600	Weak transcription	HUVEC	blood vessel
5	chr3:49509600-49513800	Weak transcription	NH-A	brain
6	chr3:49509600-49514200	Weak transcription	Fetal Brain Female	brain
7	chr3:49509600-49514400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr3:49509600-49514800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr3:49509600-49519000	Weak transcription	Primary B cells from cord blood	blood
10	chr3:49509600-49522800	Weak transcription	Brain Angular Gyrus	brain
11	chr3:49509600-49530800	Weak transcription	Brain Germinal Matrix	brain
12	chr3:49509600-49537800	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr3:49509800-49511600	Genic enhancers	Fetal Muscle Trunk	muscle
14	chr3:49509800-49512800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr3:49509800-49513400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:49509800-49513400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr3:49509800-49513400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr3:49509800-49513600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr3:49509800-49513600	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr3:49509800-49513600	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr3:49509800-49513600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr3:49509800-49513600	Weak transcription	Primary B cells from peripheral blood	blood
23	chr3:49509800-49513600	Weak transcription	Primary T helper cells PMA-I stimulated	--
24	chr3:49509800-49513600	Weak transcription	Osteobl	bone
25	chr3:49509800-49513800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr3:49509800-49513800	Weak transcription	Primary hematopoietic stem cells	blood
27	chr3:49509800-49513800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr3:49509800-49513800	Weak transcription	Adipose Nuclei	Adipose
29	chr3:49509800-49513800	Weak transcription	Esophagus	oesophagus
30	chr3:49509800-49514200	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr3:49509800-49514200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr3:49509800-49514200	Weak transcription	Lung	lung
33	chr3:49509800-49514200	Weak transcription	Spleen	Spleen
34	chr3:49509800-49514200	Weak transcription	A549	lung
35	chr3:49509800-49514400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr3:49509800-49514600	Weak transcription	Aorta	Aorta
37	chr3:49509800-49514600	Weak transcription	Gastric	stomach
38	chr3:49509800-49514600	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr3:49509800-49514800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr3:49509800-49514800	Weak transcription	Liver	Liver
41	chr3:49509800-49514800	Weak transcription	Brain Cingulate Gyrus	brain
42	chr3:49509800-49514800	Weak transcription	Colonic Mucosa	Colon
43	chr3:49509800-49514800	Weak transcription	Duodenum Mucosa	Duodenum
44	chr3:49509800-49520800	Weak transcription	Ovary	ovary
45	chr3:49509800-49522800	Weak transcription	Brain Hippocampus Middle	brain
46	chr3:49509800-49522800	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr3:49509800-49522800	Weak transcription	NHEK	skin
48	chr3:49509800-49523000	Weak transcription	Brain Substantia Nigra	brain
49	chr3:49509800-49531000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr3:49509800-49537600	Weak transcription	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links