Variant report

Variant	rs7673578
Chromosome Location	chr4:82275708-82275709
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10013788	0.89[AMR][1000 genomes]
rs10017744	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10021462	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10028610	0.89[AMR][1000 genomes]
rs11099465	0.91[EUR][1000 genomes]
rs11727754	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11731567	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11732090	0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11732106	0.89[AMR][1000 genomes]
rs11736471	0.89[AMR][1000 genomes]
rs11736583	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11939135	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12332030	0.89[AMR][1000 genomes]
rs13435660	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1349641	0.92[EUR][1000 genomes]
rs1377059	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1443543	0.85[EUR][1000 genomes]
rs1452367	0.97[EUR][1000 genomes]
rs1551236	0.89[AMR][1000 genomes]
rs1662845	0.84[AFR][1000 genomes]
rs17428097	0.89[AMR][1000 genomes]
rs17428153	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17500037	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17500100	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1993160	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2034628	0.92[EUR][1000 genomes]
rs2041461	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2058367	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2159656	0.98[EUR][1000 genomes]
rs2903765	0.85[EUR][1000 genomes]
rs4693996	0.87[EUR][1000 genomes]
rs4694006	0.91[EUR][1000 genomes]
rs6535242	0.91[EUR][1000 genomes]
rs6535243	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6814785	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6819909	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6821450	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6839968	0.97[EUR][1000 genomes]
rs6851443	0.85[EUR][1000 genomes]
rs6853731	0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7654102	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7660089	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7664953	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7669131	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7677239	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7681976	0.94[EUR][1000 genomes]
rs7694769	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9307782	0.93[AMR][1000 genomes];0.94[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	nsv999729	chr4:81802554-82627820	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv537156	chr4:81802554-82627820	Flanking Active TSS Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv829985	chr4:82199328-82353656	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7673578	PRKG2	cis	Nerve Tibial	GTEx

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:82273800-82276200	Enhancers	NHDF-Ad	bronchial
2	chr4:82274200-82276000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr4:82274200-82280200	Weak transcription	NHLF	lung
4	chr4:82274400-82279200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr4:82275400-82277600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr4:82275400-82280200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr4:82275400-82280200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links