Variant report

Variant	rs10873985
Chromosome Location	chr1:78936411-78936412
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10082040	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10443177	0.86[ASN][1000 genomes]
rs10489785	0.81[CHB][hapmap]
rs10782664	0.85[MEX][hapmap]
rs10782665	0.92[CEU][hapmap];0.91[CHB][hapmap];0.84[CHD][hapmap];0.89[GIH][hapmap];0.90[JPT][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10873979	0.87[CHB][hapmap]
rs10873980	0.80[MEX][hapmap]
rs10873983	0.81[CHB][hapmap]
rs11162479	0.80[MEX][hapmap]
rs11162488	0.84[JPT][hapmap]
rs11162490	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs11162492	0.84[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.90[MEX][hapmap];0.87[ASN][1000 genomes]
rs11162493	0.87[ASN][1000 genomes]
rs12024476	0.87[ASN][1000 genomes]
rs12031857	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12049259	0.81[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs12073895	0.87[ASN][1000 genomes]
rs12132664	0.80[MEX][hapmap]
rs12742293	0.80[MEX][hapmap]
rs1328447	0.85[MEX][hapmap]
rs1328448	0.81[CHB][hapmap]
rs1332254	0.96[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.85[YRI][hapmap];0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1543675	0.88[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.85[MEX][hapmap];0.85[ASN][1000 genomes]
rs1571366	0.81[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs1576806	0.86[ASN][1000 genomes]
rs1581749	0.92[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.83[YRI][hapmap]
rs1590312	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1590313	0.87[ASN][1000 genomes]
rs1929982	0.85[JPT][hapmap]
rs2208897	0.91[CHB][hapmap];0.83[CHD][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2224674	0.81[CHB][hapmap];0.90[JPT][hapmap];0.85[MEX][hapmap];0.82[ASN][1000 genomes]
rs2990698	0.81[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs35166559	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4650548	0.86[ASN][1000 genomes]
rs4650549	0.88[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs482493	0.82[ASN][1000 genomes]
rs490938	0.85[MEX][hapmap]
rs494981	0.84[MEX][hapmap]
rs525351	0.81[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs537086	0.82[ASN][1000 genomes]
rs538855	0.81[CHB][hapmap];0.85[MEX][hapmap]
rs555475	0.81[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs571456	0.81[CHB][hapmap];0.85[JPT][hapmap]
rs583964	0.81[JPT][hapmap];0.85[MEX][hapmap]
rs585795	0.81[ASN][1000 genomes]
rs587996	0.81[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs591889	0.84[ASN][1000 genomes]
rs631280	0.81[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs632184	0.81[CHB][hapmap];0.90[JPT][hapmap];0.85[MEX][hapmap];0.84[ASN][1000 genomes]
rs639594	0.82[ASN][1000 genomes]
rs646012	0.81[CHB][hapmap];0.90[JPT][hapmap];0.85[MEX][hapmap];0.85[ASN][1000 genomes]
rs648572	0.82[ASN][1000 genomes]
rs651313	0.82[ASN][1000 genomes]
rs6678699	0.92[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs689294	0.82[ASN][1000 genomes]
rs7417327	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	nsv1013008	chr1:78463173-78958701	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv535012	chr1:78463173-78958701	Enhancers Genic enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
3	nsv871835	chr1:78528803-79501129	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv870807	chr1:78867347-79032598	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:78931200-78937200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr1:78935400-78937400	Weak transcription	Fetal Brain Male	brain
3	chr1:78935600-78937800	Weak transcription	NHDF-Ad	bronchial
4	chr1:78935800-78937200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr1:78936200-78937600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr1:78936400-78937200	Weak transcription	Muscle Satellite Cultured Cells	--

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