Variant report

Variant	rs10084275
Chromosome Location	chr2:205472872-205472873
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10170405	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10174747	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10175139	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10198136	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10490268	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10932077	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10932079	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10932080	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11674084	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11675511	0.85[EUR][1000 genomes]
rs11675555	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11680708	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12474673	0.85[EUR][1000 genomes]
rs12474806	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12614238	0.84[EUR][1000 genomes]
rs12621786	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12694004	0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12986544	0.83[AMR][1000 genomes]
rs13017644	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13024650	0.85[EUR][1000 genomes]
rs1447497	0.81[AMR][1000 genomes]
rs1861766	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1868068	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2111447	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2193449	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2193450	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2216318	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2216319	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2334802	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4673307	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6721452	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6731575	0.83[AMR][1000 genomes]
rs7568847	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7587284	0.95[EUR][1000 genomes]
rs7590330	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7595939	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7600675	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7603507	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7609521	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs763832	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9283519	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][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	nsv964353	chr2:205303005-205473935	Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv998485	chr2:205407813-206184006	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv536122	chr2:205407813-206184006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv875722	chr2:205462099-205572718	Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:205467400-205477200	Enhancers	Colon Smooth Muscle	Colon
2	chr2:205468600-205475400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr2:205469200-205473000	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr2:205470000-205475000	Weak transcription	Pancreas	Pancrea
5	chr2:205470800-205474800	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr2:205471200-205473400	Enhancers	Fetal Kidney	kidney
7	chr2:205471200-205474200	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr2:205471600-205473800	Enhancers	Duodenum Smooth Muscle	Duodenum
9	chr2:205471800-205473800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr2:205472000-205473000	Enhancers	Fetal Lung	lung
11	chr2:205472000-205473600	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr2:205472000-205473600	Enhancers	Liver	Liver
13	chr2:205472000-205473600	Enhancers	Brain Substantia Nigra	brain
14	chr2:205472000-205473600	Enhancers	Fetal Stomach	stomach
15	chr2:205472000-205473800	Enhancers	Adipose Nuclei	Adipose
16	chr2:205472200-205473600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr2:205472200-205473800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr2:205472400-205473200	Enhancers	Aorta	Aorta
19	chr2:205472400-205473200	Enhancers	Left Ventricle	heart
20	chr2:205472400-205473400	Enhancers	Small Intestine	intestine
21	chr2:205472400-205473600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr2:205472400-205473600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr2:205472400-205473600	Enhancers	Brain Anterior Caudate	brain
24	chr2:205472400-205473600	Enhancers	Brain Hippocampus Middle	brain
25	chr2:205472400-205473600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr2:205472400-205473600	Enhancers	Right Atrium	heart
27	chr2:205472400-205473600	Enhancers	HSMM	muscle
28	chr2:205472400-205473600	Enhancers	HSMMtube	muscle
29	chr2:205472400-205473600	Enhancers	NHDF-Ad	bronchial
30	chr2:205472400-205473600	Enhancers	Osteobl	bone
31	chr2:205472400-205473800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr2:205472400-205473800	Enhancers	Brain Cingulate Gyrus	brain
33	chr2:205472400-205474000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr2:205472400-205475600	Enhancers	Ovary	ovary
35	chr2:205472400-205477400	Enhancers	Fetal Intestine Large	intestine
36	chr2:205472600-205473400	Weak transcription	Fetal Intestine Small	intestine
37	chr2:205472600-205473400	Enhancers	Fetal Muscle Leg	muscle
38	chr2:205472600-205473600	Enhancers	Psoas Muscle	Psoas
39	chr2:205472600-205473600	Enhancers	NH-A	brain
40	chr2:205472600-205473600	Enhancers	NHLF	lung
41	chr2:205472600-205473800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr2:205472800-205473200	Enhancers	Rectal Smooth Muscle	rectum
43	chr2:205472800-205473200	Flanking Active TSS	Stomach Smooth Muscle	stomach
44	chr2:205472800-205473600	Enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links