Variant report

Variant	rs17029611
Chromosome Location	chr3:24597768-24597769
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NR1D2-5	chr3:24597325-24597950	NONHSAT088702

Extended variants
information (count: 35 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11708042	0.91[ASN][1000 genomes]
rs11712286	0.92[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs13318800	0.81[ASN][1000 genomes]
rs1561079	0.93[CHB][hapmap]
rs17014902	0.85[JPT][hapmap]
rs1992040	0.93[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs1992041	0.81[ASN][1000 genomes]
rs2117873	0.80[ASN][1000 genomes]
rs2117874	0.91[ASN][1000 genomes]
rs2164428	0.85[CHB][hapmap];0.93[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs2196438	0.93[CHB][hapmap];0.83[CHD][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs3919672	0.86[CHB][hapmap];0.87[CHD][hapmap];0.81[JPT][hapmap]
rs60560161	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6550879	0.87[CHD][hapmap]
rs6795607	0.87[CHD][hapmap]
rs73038411	0.80[ASN][1000 genomes]
rs73038427	0.91[ASN][1000 genomes]
rs7647700	0.81[ASN][1000 genomes]
rs9310745	0.86[CHB][hapmap];0.87[CHD][hapmap];0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs9819865	0.83[CHD][hapmap]
rs9823545	0.93[CHB][hapmap];0.80[JPT][hapmap];0.81[ASN][1000 genomes]
rs9830859	0.91[CHB][hapmap]
rs9835497	0.86[CHB][hapmap];0.87[CHD][hapmap];0.81[JPT][hapmap];0.81[MEX][hapmap];0.80[ASN][1000 genomes]
rs9838616	0.93[CHB][hapmap];0.87[CHD][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs9838720	0.93[CHB][hapmap];0.87[CHD][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs9844544	0.80[ASN][1000 genomes]
rs9850781	0.81[ASN][1000 genomes]
rs9853927	0.86[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.91[ASN][1000 genomes]
rs9861129	0.91[CHB][hapmap];0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs9868375	0.84[CHB][hapmap];0.84[JPT][hapmap]
rs9873830	0.84[CHB][hapmap];0.80[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	nsv834641	chr3:24465862-24633738	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	nsv834642	chr3:24475558-24640593	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
3	nsv1012975	chr3:24500706-24615644	Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases
4	nsv999384	chr3:24525345-24656873	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24597400-24597800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr3:24597400-24597800	Enhancers	Placenta	Placenta

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