Variant report

Variant	rs10810294
Chromosome Location	chr9:14955410-14955411
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10810295	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10810296	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10810297	1.00[ASN][1000 genomes]
rs10810298	1.00[ASN][1000 genomes]
rs10810299	0.96[ASN][1000 genomes]
rs10810305	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10810306	0.86[ASN][1000 genomes]
rs10810307	0.88[ASN][1000 genomes]
rs10810308	0.88[ASN][1000 genomes]
rs10961806	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10961809	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10961814	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10961817	0.87[ASN][1000 genomes]
rs11515200	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11515203	0.85[EUR][1000 genomes]
rs11793253	0.99[ASN][1000 genomes]
rs12340301	0.88[ASN][1000 genomes]
rs12378196	0.95[ASN][1000 genomes]
rs12379705	0.91[ASN][1000 genomes]
rs1357474	0.98[ASN][1000 genomes]
rs1403560	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1589666	1.00[ASN][1000 genomes]
rs1829850	0.99[ASN][1000 genomes]
rs1880013	0.87[ASN][1000 genomes]
rs2049291	0.95[ASN][1000 genomes]
rs2049292	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2381973	0.99[ASN][1000 genomes]
rs3861706	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4546746	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7020107	0.87[ASN][1000 genomes]
rs7028135	0.99[ASN][1000 genomes]
rs7042782	0.99[ASN][1000 genomes]
rs7043477	0.85[ASN][1000 genomes]
rs7350286	0.91[ASN][1000 genomes]
rs7350287	0.84[ASN][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	nsv613637	chr9:14524438-15011915	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv613647	chr9:14852141-15016475	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv892620	chr9:14922877-15086021	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv892621	chr9:14928013-15043692	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs10810294	RP11-54D18.2	cis	Muscle Skeletal	GTEx
rs10810294	RP11-54D18.2	cis	Nerve Tibial	GTEx
rs10810294	RP11-54D18.2	cis	Esophagus Muscularis	GTEx
rs10810294	RP11-54D18.2	cis	Thyroid	GTEx
rs10810294	RP11-54D18.2	cis	Artery Aorta	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:14933200-14957200	Weak transcription	Fetal Muscle Leg	muscle
2	chr9:14950800-14957200	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links