Variant report

Variant	rs9461288
Chromosome Location	chr6:26671135-26671136
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 9 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1021372	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1021373	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1027203	0.85[EUR][1000 genomes]
rs1027204	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2130657	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2172007	0.84[EUR][1000 genomes]
rs2451711	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2451712	0.89[EUR][1000 genomes]
rs2451731	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2451741	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2451744	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2451750	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2451751	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2494700	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2494701	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2494709	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2494713	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2494716	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2498351	0.88[EUR][1000 genomes]
rs2498380	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2504565	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2504566	0.88[EUR][1000 genomes]
rs2504567	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2504571	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2504592	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2504600	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2758383	0.84[EUR][1000 genomes]
rs3001369	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9295701	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9467813	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9467831	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[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	nsv948921	chr6:26556890-27443957	Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	472 gene(s)	inside rSNPs	diseases

mRNA abundance (count:9)

SNP	Gene	Cis/trans	Tissue	Source
rs9461288	RP11-457M11.2	cis	Nerve Tibial	GTEx
rs9461288	RP11-457M11.2	cis	lung	GTEx
rs9461288	RP11-457M11.2	cis	Thyroid	GTEx
rs9461288	RP11-457M11.2	cis	Artery Tibial	GTEx
rs9461288	HCG11	Cis_1M	lymphoblastoid	RTeQTL
rs9461288	HMGN4	Cis_1M	lymphoblastoid	RTeQTL
rs9461288	ZNF322	cis	Artery Tibial	GTEx
rs9461288	ZNF322	cis	Thyroid	GTEx
rs9461288	ZNF322	cis	Nerve Tibial	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26669600-26676600	Weak transcription	Ovary	ovary
2	chr6:26670600-26690000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:26670800-26671200	Active TSS	Spleen	Spleen

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links