Variant report

Variant	rs4666774
Chromosome Location	chr2:190201958-190201959
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10497700	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10755004	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10931414	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10931415	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10931416	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10931418	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10931419	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1112578	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1157910	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11677066	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11688021	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11691691	0.93[AMR][1000 genomes]
rs11695159	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12612412	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12616234	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12621939	0.80[EUR][1000 genomes]
rs12623723	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12987962	0.81[AMR][1000 genomes]
rs12990035	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12990235	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12997620	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12999122	0.82[EUR][1000 genomes]
rs13004187	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13004722	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13010531	0.83[AMR][1000 genomes]
rs13011374	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13011485	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13015203	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13015283	0.82[EUR][1000 genomes]
rs13016231	0.82[EUR][1000 genomes]
rs13021508	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13022633	0.87[EUR][1000 genomes]
rs13032853	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13033841	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1356977	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1402368	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1520855	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1520857	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1520859	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1520863	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1520864	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1568334	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1581351	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1851105	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1878085	0.81[EUR][1000 genomes]
rs1949484	0.82[EUR][1000 genomes]
rs1949604	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1949605	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2222256	0.82[EUR][1000 genomes]
rs2304703	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2351636	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3914778	0.82[EUR][1000 genomes]
rs4287797	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4353589	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4667272	0.82[EUR][1000 genomes]
rs4667274	0.86[EUR][1000 genomes]
rs4667276	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4667277	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4667281	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs60124911	0.81[EUR][1000 genomes]
rs6434339	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6728055	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6745108	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7564611	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7576165	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7587147	0.82[EUR][1000 genomes]
rs7587956	0.82[EUR][1000 genomes]
rs7588453	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7593821	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7596592	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7607133	0.86[EUR][1000 genomes]
rs963738	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9679659	0.91[AMR][1000 genomes];0.90[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	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv875613	chr2:189999011-190324685	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv875614	chr2:190110841-190254758	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190193800-190202800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr2:190196400-190204600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr2:190200600-190203200	Enhancers	Muscle Satellite Cultured Cells	--
4	chr2:190201000-190202800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr2:190201000-190203400	Enhancers	NHDF-Ad	bronchial
6	chr2:190201000-190203800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr2:190201200-190202000	Enhancers	A549	lung
8	chr2:190201200-190202800	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr2:190201400-190202800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr2:190201400-190203200	Enhancers	Colon Smooth Muscle	Colon
11	chr2:190201600-190202600	Weak transcription	Osteobl	bone
12	chr2:190201600-190202800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr2:190201600-190202800	Weak transcription	NHLF	lung
14	chr2:190201600-190203200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr2:190201600-190203400	Enhancers	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links