Variant report

Variant	rs6051066
Chromosome Location	chr20:25947253-25947254
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM182A-1	chr20:25945639-25949923	XLOC_013502
2	lnc-FAM182A-1	chr20:25945639-25949924	ENSG00000226203

Extended variants
information (count: 56 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11696569	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12624435	0.92[ASN][1000 genomes]
rs13039394	0.92[ASN][1000 genomes]
rs13039873	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2180027	0.94[ASN][1000 genomes]
rs2386804	0.92[ASN][1000 genomes]
rs34982694	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35230476	0.92[ASN][1000 genomes]
rs35778990	0.92[ASN][1000 genomes]
rs4003014	0.88[ASN][1000 genomes]
rs4239752	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4813593	0.84[ASN][1000 genomes]
rs4813596	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4813597	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4815493	0.96[ASN][1000 genomes]
rs58999745	0.93[ASN][1000 genomes]
rs6051065	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6107121	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6107124	0.93[ASN][1000 genomes]
rs6115454	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6115458	0.96[ASN][1000 genomes]
rs6115461	0.92[ASN][1000 genomes]
rs6115475	0.96[ASN][1000 genomes]
rs6132915	0.89[ASN][1000 genomes]
rs6138762	0.96[ASN][1000 genomes]
rs6138767	0.92[ASN][1000 genomes]
rs6138768	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6138777	0.89[ASN][1000 genomes]
rs6138778	0.88[ASN][1000 genomes]
rs66769568	0.89[ASN][1000 genomes]
rs7266039	0.93[ASN][1000 genomes]
rs7274601	0.93[ASN][1000 genomes]
rs74175408	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:23 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758517	chr20:25701992-26319569	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	50 gene(s)	inside rSNPs	diseases
2	esv2758790	chr20:25701992-26319569	Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	50 gene(s)	inside rSNPs	diseases
3	nsv470545	chr20:25715507-26309255	Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases
4	nsv585756	chr20:25786301-25948094	Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv585757	chr20:25786301-25948327	Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv585758	chr20:25786984-25951658	Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv585759	chr20:25787096-25948327	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv1059041	chr20:25832105-26007269	Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv1060065	chr20:25832105-26305567	Flanking Bivalent TSS/Enh Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	44 gene(s)	inside rSNPs	diseases
10	nsv962569	chr20:25876021-26152500	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
11	nsv585760	chr20:25892571-25949274	Enhancers	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv585761	chr20:25892571-26299677	Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	41 gene(s)	inside rSNPs	diseases
13	nsv585762	chr20:25904616-25952310	Enhancers	TF binding region lncRNA	2 gene(s)	inside rSNPs	diseases
14	esv3518424	chr20:25911038-26051227	Active TSS Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island lncRNA	6 gene(s)	inside rSNPs	diseases
15	esv3518425	chr20:25911125-26051144	Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island lncRNA	6 gene(s)	inside rSNPs	diseases
16	nsv1060508	chr20:25918612-26305567	ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
17	nsv585763	chr20:25922993-25949274	Enhancers	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
18	nsv585764	chr20:25922993-25954458	Enhancers	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
19	nsv585765	chr20:25927487-25950277	Enhancers	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
20	nsv1057970	chr20:25937126-26305567	Weak transcription Active TSS ZNF genes & repeats Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 gene(s)	inside rSNPs	diseases
21	nsv1059447	chr20:25941928-26305567	Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 gene(s)	inside rSNPs	diseases
22	nsv9796	chr20:25944188-25979608	Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Bivalent/Poised TSS Weak transcription Bivalent Enhancer	lncRNA	n/a	inside rSNPs	diseases
23	nsv585766	chr20:25944966-25952310	Enhancers	lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6051066	FAM182B	cis	Skin Sun Exposed Lower leg	GTEx
rs6051066	PYGB	cis	Whole Blood	GTEx
rs6051066	FAM182B	cis	Esophagus Muscularis	GTEx

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links