Variant report

Variant	rs1448616
Chromosome Location	chr3:85872974-85872975
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 93 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs10084716	0.81[CEU][hapmap];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11127905	0.81[JPT][hapmap]
rs11711972	0.95[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11715949	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12494196	0.81[JPT][hapmap]
rs12494511	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12636273	0.81[TSI][hapmap]
rs12714642	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13068185	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13085195	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1375218	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1375219	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs1448607	0.96[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];0.98[TSI][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1562626	1.00[ASW][hapmap];0.88[CEU][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.89[TSI][hapmap]
rs17334733	0.81[JPT][hapmap]
rs1839171	0.82[EUR][1000 genomes]
rs2029051	0.81[JPT][hapmap]
rs2029052	0.81[JPT][hapmap]
rs2029053	0.81[JPT][hapmap]
rs2044654	0.86[JPT][hapmap]
rs2324938	0.87[ASW][hapmap];0.84[CEU][hapmap];0.85[GIH][hapmap];0.95[MEX][hapmap];0.84[TSI][hapmap]
rs2324939	0.84[CEU][hapmap]
rs2325036	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs2325037	0.88[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[JPT][hapmap];0.93[TSI][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2875529	0.87[ASN][1000 genomes]
rs3901898	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];0.91[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs3906942	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3930071	0.92[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap]
rs4129497	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4234702	0.87[ASW][hapmap];0.84[CEU][hapmap];0.85[GIH][hapmap];0.95[MEX][hapmap];0.84[TSI][hapmap]
rs4302392	0.81[JPT][hapmap]
rs4302393	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4302394	0.90[GIH][hapmap];0.95[MEX][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4308293	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4364177	0.84[CEU][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4488844	0.92[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4504176	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4555536	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap]
rs4555539	0.92[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap]
rs4688896	0.87[CEU][hapmap]
rs4856279	1.00[ASW][hapmap];1.00[CEU][hapmap];0.88[CHB][hapmap];0.94[CHD][hapmap];0.97[GIH][hapmap];0.82[JPT][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs4856606	0.87[ASW][hapmap];0.83[CEU][hapmap];0.80[CHB][hapmap];0.90[GIH][hapmap];0.81[JPT][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4856607	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56282418	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6549053	0.91[CEU][hapmap]
rs6549054	1.00[CHB][hapmap];0.90[JPT][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6549055	1.00[CHB][hapmap];0.82[CHD][hapmap];0.87[ASN][1000 genomes]
rs6549063	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6769012	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6787901	0.92[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6796380	0.92[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6796402	0.96[CEU][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6799453	0.96[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[TSI][hapmap]
rs7426412	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7429346	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7609709	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7611409	0.87[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap]
rs7612371	0.96[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes]
rs7614073	0.80[EUR][1000 genomes]
rs7620544	0.82[EUR][1000 genomes]
rs7621146	1.00[CEU][hapmap];0.87[CHB][hapmap];0.83[JPT][hapmap]
rs7623735	0.84[CEU][hapmap]
rs7624423	0.81[JPT][hapmap]
rs7625223	0.84[CEU][hapmap]
rs7626873	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7632162	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7636206	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7637221	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7638774	0.87[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes]
rs7642281	0.92[CEU][hapmap];0.81[CHB][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7648895	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7653470	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs9309992	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9309996	0.86[CEU][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9681744	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs9713674	0.81[EUR][1000 genomes]
rs9820133	0.81[JPT][hapmap]
rs9820262	0.81[JPT][hapmap]
rs9829446	0.83[CEU][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9832847	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9836755	1.00[CHB][hapmap];0.84[CHD][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs9843797	0.96[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap]
rs9846878	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9850482	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9851502	0.84[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9864042	0.96[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap]
rs9866273	0.84[CEU][hapmap]
rs9876664	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs9881886	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.82[EUR][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	nsv532629	chr3:85763873-86608579	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv877106	chr3:85814620-86006210	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv877107	chr3:85814620-86037162	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv877108	chr3:85870363-86037162	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1448616	ZNF654	cis	parietal	SCAN

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

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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