Variant report

Variant	rs13083092
Chromosome Location	chr3:89270883-89270884
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1040017	0.84[CHB][hapmap]
rs11128071	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11128072	0.84[CHB][hapmap];0.82[YRI][hapmap]
rs11720651	0.80[CHB][hapmap];0.93[JPT][hapmap]
rs1512910	0.84[CHB][hapmap]
rs1512912	0.84[CHB][hapmap];0.86[YRI][hapmap];0.82[AFR][1000 genomes]
rs1567732	0.84[CHB][hapmap]
rs28885734	0.80[AFR][1000 genomes]
rs4132275	1.00[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap]
rs4449340	0.84[CHB][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes]
rs4857496	0.91[YRI][hapmap];0.83[AFR][1000 genomes]
rs6551407	0.80[CHB][hapmap];0.93[JPT][hapmap];0.80[ASN][1000 genomes]
rs6551409	0.84[CHB][hapmap];0.82[YRI][hapmap]
rs6770978	0.82[AFR][1000 genomes]
rs6771477	0.92[YRI][hapmap];0.83[AFR][1000 genomes]
rs6779902	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6793727	0.96[CEU][hapmap];1.00[YRI][hapmap]
rs6802483	0.82[YRI][hapmap]
rs7428532	0.87[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs7432113	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7432948	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7609645	0.91[JPT][hapmap]
rs7612746	0.96[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap]
rs7646842	0.96[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap]
rs7647240	0.91[YRI][hapmap]
rs872976	0.81[AFR][1000 genomes]
rs9310117	0.89[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs9809046	0.86[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9810366	0.91[YRI][hapmap]
rs9817310	0.89[CHB][hapmap];0.86[JPT][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9826158	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9832319	0.87[YRI][hapmap]
rs9837346	0.87[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9838512	0.92[YRI][hapmap];0.87[AFR][1000 genomes]
rs9866945	0.84[CHB][hapmap]
rs9873281	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9877953	0.92[YRI][hapmap];0.84[AFR][1000 genomes]
rs9878894	0.87[YRI][hapmap]
rs9879028	0.81[AFR][1000 genomes]
rs994129	0.84[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 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
6	esv3379291	chr3:89270662-89272710	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89263600-89277000	Weak transcription	Brain Germinal Matrix	brain
2	chr3:89266200-89272200	Weak transcription	Fetal Brain Male	brain
3	chr3:89266400-89277800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr3:89270400-89271400	Enhancers	Fetal Brain Female	brain

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