Variant report

Variant	rs11629824
Chromosome Location	chr15:79005524-79005525
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11072793	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11072794	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11072799	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11629639	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11633170	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11633519	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11634628	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11852887	0.83[EUR][1000 genomes]
rs11852909	0.86[EUR][1000 genomes]
rs11856441	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12899940	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12901228	0.84[EUR][1000 genomes]
rs12907178	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12907511	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1383634	0.86[EUR][1000 genomes]
rs1383635	0.86[EUR][1000 genomes]
rs1809412	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1809414	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1814880	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1825086	0.86[EUR][1000 genomes]
rs1904920	0.82[EUR][1000 genomes]
rs2219939	0.86[EUR][1000 genomes]
rs4887078	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6495317	0.83[ASN][1000 genomes]
rs6495318	0.84[ASN][1000 genomes]
rs7163236	0.83[ASN][1000 genomes]
rs7170552	0.84[ASN][1000 genomes]
rs7170563	0.82[ASN][1000 genomes]
rs72625802	0.84[ASN][1000 genomes]
rs8039600	0.83[ASN][1000 genomes]
rs899997	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9888691	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[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	nsv917303	chr15:78491050-79205255	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	122 gene(s)	inside rSNPs	diseases
2	nsv457208	chr15:78908032-79019610	Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv570201	chr15:78908032-79019610	Bivalent Enhancer Bivalent/Poised TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv974606	chr15:78996783-79048337	Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11629824	RP11-650L12.2	cis	Muscle Skeletal	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:79002200-79007400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr15:79005400-79005800	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links