Variant report

Variant	rs4858970
Chromosome Location	chr3:88048652-88048653
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs11128023	1.00[EUR][1000 genomes]
rs12632860	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13079714	0.83[AFR][1000 genomes]
rs1367615	1.00[EUR][1000 genomes]
rs1431154	1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.80[MKK][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1431155	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1431156	1.00[ASN][1000 genomes]
rs1469570	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs1594453	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1594455	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1604700	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1835544	1.00[ASN][1000 genomes]
rs1897238	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2033390	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2344183	1.00[ASN][1000 genomes]
rs2344184	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs2567037	1.00[EUR][1000 genomes]
rs2735557	1.00[EUR][1000 genomes]
rs2880793	1.00[ASN][1000 genomes]
rs2915287	1.00[CHB][hapmap]
rs4241549	1.00[EUR][1000 genomes]
rs4241550	1.00[EUR][1000 genomes]
rs4287925	1.00[EUR][1000 genomes]
rs4303891	1.00[MEX][hapmap];0.84[YRI][hapmap]
rs4404474	1.00[EUR][1000 genomes]
rs4425287	1.00[EUR][1000 genomes]
rs4431134	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4443201	1.00[EUR][1000 genomes]
rs4513473	1.00[EUR][1000 genomes]
rs4515075	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4616669	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858927	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858933	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs4858989	1.00[EUR][1000 genomes]
rs6551270	1.00[EUR][1000 genomes]
rs6767497	1.00[ASN][1000 genomes]
rs7615309	1.00[EUR][1000 genomes]
rs7621357	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs7625641	1.00[EUR][1000 genomes]
rs7633486	1.00[EUR][1000 genomes]
rs7636845	1.00[EUR][1000 genomes]
rs7650749	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7650912	1.00[EUR][1000 genomes]
rs7650915	1.00[EUR][1000 genomes]
rs891597	1.00[CHB][hapmap]
rs930154	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs930155	1.00[ASN][1000 genomes]
rs9310062	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9310063	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9310064	1.00[ASN][1000 genomes]
rs9310069	1.00[EUR][1000 genomes]
rs9310073	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs9812903	1.00[CHB][hapmap];0.84[YRI][hapmap];0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9833231	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9850550	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9854250	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9860113	1.00[EUR][1000 genomes]
rs9864564	1.00[EUR][1000 genomes]
rs9867614	0.93[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv877146	chr3:87983962-88159835	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:88046800-88049800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr3:88046800-88050000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr3:88046800-88050000	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr3:88046800-88050000	Weak transcription	Duodenum Mucosa	Duodenum
5	chr3:88046800-88050000	Weak transcription	Gastric	stomach
6	chr3:88046800-88050000	Weak transcription	NH-A	brain
7	chr3:88046800-88054400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr3:88047000-88050000	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr3:88047200-88050000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr3:88047400-88048800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr3:88047400-88049800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr3:88047400-88050000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr3:88047400-88050000	Weak transcription	Liver	Liver
14	chr3:88047400-88050000	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr3:88048400-88050000	Weak transcription	Primary hematopoietic stem cells	blood
16	chr3:88048600-88050000	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr3:88048600-88050000	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr3:88048600-88050000	Weak transcription	Right Ventricle	heart
19	chr3:88048600-88050000	Weak transcription	Monocytes-CD14+_RO01746	blood
20	chr3:88048600-88054200	Weak transcription	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links