Variant report

Variant	rs7646842
Chromosome Location	chr3:89249284-89249285
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1040017	0.88[GIH][hapmap]
rs11128071	0.96[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];0.82[YRI][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11128072	0.85[GIH][hapmap]
rs11720651	0.81[JPT][hapmap]
rs13083092	0.96[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1512910	0.88[GIH][hapmap]
rs1512912	0.88[GIH][hapmap];0.87[YRI][hapmap]
rs1567732	0.85[GIH][hapmap]
rs4132275	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs4449340	0.88[GIH][hapmap];0.87[YRI][hapmap]
rs4857496	0.91[YRI][hapmap]
rs6551407	0.81[JPT][hapmap]
rs6551409	0.88[GIH][hapmap];0.82[YRI][hapmap]
rs6771477	0.91[YRI][hapmap]
rs6779902	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs67860850	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs6793727	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs6802483	0.97[LWK][hapmap];0.80[MKK][hapmap];0.82[YRI][hapmap]
rs7432113	0.96[CEU][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7432948	0.95[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7611735	0.94[LWK][hapmap]
rs7612746	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7641811	0.82[YRI][hapmap]
rs7647240	1.00[LWK][hapmap];0.80[MKK][hapmap];0.91[YRI][hapmap]
rs9310117	0.82[CHB][hapmap];0.92[GIH][hapmap]
rs9810366	0.91[YRI][hapmap]
rs9817310	0.82[CHB][hapmap];0.92[GIH][hapmap];0.92[LWK][hapmap];0.96[MKK][hapmap];0.91[YRI][hapmap]
rs9826158	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9832319	0.91[YRI][hapmap]
rs9838512	0.91[YRI][hapmap]
rs9866945	0.88[GIH][hapmap]
rs9873281	0.95[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9877953	0.91[YRI][hapmap]
rs9878894	0.87[YRI][hapmap]
rs994129	0.88[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7646842	AGAP2	trans	cerebellum	SCAN

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

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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