Variant report

Variant	rs1016542
Chromosome Location	chr2:56867078-56867079
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:65596956..65597465-chr2:56867065..56867565,2	NB4	blood:

Variant related genes	Relation type
ENSG00000200156	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10164491	0.88[EUR][1000 genomes]
rs10187925	0.88[EUR][1000 genomes]
rs10190939	0.82[EUR][1000 genomes]
rs12611839	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13389774	0.82[EUR][1000 genomes]
rs13403703	0.88[EUR][1000 genomes]
rs13411277	0.86[EUR][1000 genomes]
rs17048231	0.80[ASN][1000 genomes]
rs17048326	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17048328	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2042119	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2042120	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2112026	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2112027	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2870065	0.80[EUR][1000 genomes]
rs2870077	0.85[EUR][1000 genomes]
rs3948576	0.88[EUR][1000 genomes]
rs4566401	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs57457595	0.88[EUR][1000 genomes]
rs59647856	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60639564	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs60966744	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61403966	0.80[EUR][1000 genomes]
rs62160717	0.80[ASN][1000 genomes]
rs62160718	0.80[ASN][1000 genomes]
rs62161431	0.88[EUR][1000 genomes]
rs62161433	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62161434	0.88[EUR][1000 genomes]
rs62161435	0.83[AFR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62161436	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62162355	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6545582	0.83[EUR][1000 genomes]
rs66532230	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6728372	0.85[EUR][1000 genomes]
rs6745039	0.80[ASN][1000 genomes]
rs6757997	0.85[EUR][1000 genomes]
rs68044837	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs68152617	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7593494	0.80[EUR][1000 genomes]
rs965946	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv582051	chr2:56706758-56902709	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1005547	chr2:56751574-56887287	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1012596	chr2:56761303-56916336	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv535725	chr2:56761303-56916336	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1008859	chr2:56767452-57126026	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv535726	chr2:56767452-57126026	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1009860	chr2:56768276-56896971	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv874179	chr2:56817927-56957466	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv874180	chr2:56822558-56957466	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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