Variant report

Variant	rs6542952
Chromosome Location	chr2:101083501-101083502
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:101081235..101083922-chr2:101085954..101088786,3	K562	blood:

Variant related genes	Relation type
ENSG00000204640	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs11690911	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12614705	1.00[JPT][hapmap]
rs12621241	0.93[ASN][1000 genomes]
rs12623984	0.83[ASN][1000 genomes]
rs1437975	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1437978	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1437980	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1519654	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1519662	0.82[AMR][1000 genomes]
rs17024288	0.90[ASN][1000 genomes]
rs17024415	0.83[ASN][1000 genomes]
rs17024421	0.83[ASN][1000 genomes]
rs17024434	0.83[ASN][1000 genomes]
rs17024457	1.00[JPT][hapmap]
rs17024467	0.83[ASN][1000 genomes]
rs17024471	0.83[ASN][1000 genomes]
rs2176733	0.82[AMR][1000 genomes]
rs2309853	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2309855	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4613309	0.82[AMR][1000 genomes]
rs4850933	0.96[CEU][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4851322	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4851326	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs55796343	0.90[ASN][1000 genomes]
rs55827030	0.83[ASN][1000 genomes]
rs55849205	0.83[ASN][1000 genomes]
rs56100007	0.83[ASN][1000 genomes]
rs58553205	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61647034	0.83[ASN][1000 genomes]
rs6542953	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6709376	0.83[ASN][1000 genomes]
rs6709957	0.83[ASN][1000 genomes]
rs6716842	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6717716	0.81[CEU][hapmap];1.00[CHB][hapmap]
rs6730520	0.83[ASN][1000 genomes]
rs6738492	0.83[ASN][1000 genomes]
rs6745149	0.83[ASN][1000 genomes]
rs72821202	0.90[ASN][1000 genomes]
rs72823210	0.83[ASN][1000 genomes]
rs72823211	0.90[ASN][1000 genomes]
rs72823215	0.93[ASN][1000 genomes]
rs72823243	0.83[ASN][1000 genomes]
rs72823244	0.83[ASN][1000 genomes]
rs72823245	0.83[ASN][1000 genomes]
rs72823252	0.83[ASN][1000 genomes]
rs72823264	0.83[ASN][1000 genomes]
rs72823265	0.83[ASN][1000 genomes]
rs72823266	0.83[ASN][1000 genomes]
rs72823268	0.83[ASN][1000 genomes]
rs72823269	0.83[ASN][1000 genomes]
rs72823271	0.83[ASN][1000 genomes]
rs72825302	0.83[ASN][1000 genomes]
rs7369893	0.81[AMR][1000 genomes]
rs7561359	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7577785	0.83[ASN][1000 genomes]
rs7587950	0.83[ASN][1000 genomes]
rs7597493	1.00[JPT][hapmap]
rs7604140	0.93[ASN][1000 genomes]
rs7604590	0.83[ASN][1000 genomes]
rs9308836	0.81[AMR][1000 genomes]
rs954846	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs962555	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs962556	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007777	chr2:100816913-101308914	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv535844	chr2:100816913-101308914	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv582531	chr2:100908508-101207639	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv916792	chr2:101021066-101525200	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv582532	chr2:101029002-101531943	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv1011990	chr2:101039956-101105648	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv834312	chr2:101044438-101238166	Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

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

No data

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

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