Variant report

Variant	rs13098003
Chromosome Location	chr3:89261289-89261290
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1040015	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11914680	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11914760	0.94[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11916891	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11918311	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11919574	0.93[CEU][hapmap];1.00[JPT][hapmap]
rs11921042	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11928901	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12486049	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12487141	0.85[ASN][1000 genomes]
rs12490373	0.83[EUR][1000 genomes]
rs12490659	0.93[CEU][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12491480	0.92[ASN][1000 genomes]
rs12493524	0.85[EUR][1000 genomes]
rs12493527	0.92[ASN][1000 genomes]
rs12494615	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12495783	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12496609	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12496791	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13058761	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13058886	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs13060198	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13071923	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13074291	0.93[CEU][hapmap];0.85[EUR][1000 genomes]
rs13075931	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13084503	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13089469	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13095092	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13097212	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13097548	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13101118	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1512909	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs34493897	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34638812	0.84[EUR][1000 genomes]
rs34855223	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34893903	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34992749	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35053334	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35156943	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35445148	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35971332	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4132274	0.94[CEU][hapmap];1.00[JPT][hapmap]
rs56408441	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56938121	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59668913	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6778523	0.81[EUR][1000 genomes]
rs6797343	0.80[YRI][hapmap]
rs71322851	0.92[ASN][1000 genomes]
rs71322854	0.92[ASN][1000 genomes]
rs71322855	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322856	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71322857	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71322858	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7430987	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7432443	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7631932	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7633559	0.81[YRI][hapmap]
rs7635321	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7637578	0.93[CEU][hapmap];1.00[CHB][hapmap]
rs7638207	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7642606	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9310113	0.84[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 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	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
3	nsv437866	chr3:89247881-89480265	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv2757001	chr3:89260495-89271087	Weak transcription Enhancers Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
5	esv2759160	chr3:89260495-89271087	Weak transcription Flanking Active TSS Enhancers Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89250200-89263200	Weak transcription	Fetal Brain Female	brain
2	chr3:89250400-89261800	Weak transcription	Fetal Brain Male	brain
3	chr3:89258200-89261600	Weak transcription	Fetal Muscle Trunk	muscle
4	chr3:89259600-89262000	Weak transcription	Fetal Lung	lung
5	chr3:89259800-89263200	Weak transcription	Brain Germinal Matrix	brain
6	chr3:89259800-89266200	Weak transcription	Fetal Muscle Leg	muscle
7	chr3:89259800-89266600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr3:89260400-89265800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links