Variant report

Variant	rs4856481
Chromosome Location	chr3:84058619-84058620
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CADM2-3	chr3:84058064-84058664	XLOC_002722
2	lnc-CADM2-3	chr3:84058064-84058664	XLOC_002722
3	lnc-CADM2-3	chr3:84058064-84058664	XLOC_002722

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10511091	0.91[ASN][1000 genomes]
rs1528055	1.00[ASN][1000 genomes]
rs1609243	1.00[ASN][1000 genomes]
rs1918776	1.00[ASN][1000 genomes]
rs2141293	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2204663	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2204664	1.00[ASN][1000 genomes]
rs2325770	1.00[ASN][1000 genomes]
rs34843962	0.93[ASN][1000 genomes]
rs34867519	0.93[ASN][1000 genomes]
rs4053477	1.00[ASN][1000 genomes]
rs4856241	0.98[ASN][1000 genomes]
rs4856485	0.93[ASN][1000 genomes]
rs4856486	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59556403	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6548931	0.95[ASN][1000 genomes]
rs6548934	0.91[ASN][1000 genomes]
rs6796519	1.00[ASN][1000 genomes]
rs6798585	1.00[ASN][1000 genomes]
rs6809274	0.98[ASN][1000 genomes]
rs7631290	1.00[ASN][1000 genomes]
rs7633979	1.00[ASN][1000 genomes]
rs9863455	0.98[ASN][1000 genomes]
rs9870140	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1006081	chr3:83421626-84262106	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1012918	chr3:83784488-84191829	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv536610	chr3:83784488-84191829	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv428740	chr3:83886472-84069201	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv877073	chr3:83945963-84066103	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv877074	chr3:83952144-84066103	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv877075	chr3:83952144-84199075	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv877076	chr3:83970787-84094818	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv877077	chr3:83976987-84094818	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	nsv834751	chr3:83987488-84133470	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
11	nsv877078	chr3:83991464-84199075	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
12	nsv877079	chr3:84017630-84066103	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS	lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv590813	chr3:84024847-84066103	Enhancers Active TSS ZNF genes & repeats Weak transcription	lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv877080	chr3:84056075-84106241	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:84048000-84061200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links