Variant report

Variant	rs13058761
Chromosome Location	chr3:89213871-89213872
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs1040015	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11914680	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs11914760	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11916891	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11918311	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11919574	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs11921042	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11928901	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12486049	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs12487141	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12490373	0.82[EUR][1000 genomes]
rs12490659	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12491480	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12493524	0.83[EUR][1000 genomes]
rs12493527	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12494615	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12495783	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12496609	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12496791	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13058886	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13060198	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13071923	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13074291	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs13075931	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13084503	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13089469	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13095092	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13097212	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13097548	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13098003	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13101118	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs1512909	0.93[CEU][hapmap];1.00[CHB][hapmap]
rs34493897	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34638812	0.82[EUR][1000 genomes]
rs34855223	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34893903	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34992749	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35053334	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35156943	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35445148	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35971332	0.89[ASN][1000 genomes]
rs4132274	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs56408441	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56938121	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59668913	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6778523	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs71322851	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322854	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322855	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322856	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322857	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71322858	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7430987	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7432443	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7631932	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7635321	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7637578	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7638207	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7642606	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[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	nsv834760	chr3:89085529-89299398	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1005603	chr3:89174152-89223459	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv997874	chr3:89188275-89279573	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1008916	chr3:89206065-89241915	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89211600-89217400	Enhancers	iPS-18 Cell Line	embryonic stem cell
2	chr3:89212200-89214000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:89212200-89215000	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr3:89213200-89215000	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr3:89213400-89218400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr3:89213600-89214400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:89213600-89214600	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr3:89213600-89216200	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr3:89213800-89214400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr3:89213800-89215000	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr3:89213800-89216200	Enhancers	ES-I3 Cell Line	embryonic stem cell

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