Variant report

Variant	rs2324979
Chromosome Location	chr3:86119409-86119410
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CHMP2B-5	chr3:86118793-86122014	NONHSAT090663

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs11914992	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11922573	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs13316470	1.00[CEU][hapmap]
rs17024876	0.94[EUR][1000 genomes]
rs2324974	0.83[GIH][hapmap]
rs2324980	1.00[CHB][hapmap];0.97[CHD][hapmap];0.93[JPT][hapmap];0.99[ASN][1000 genomes]
rs28699216	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28847694	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28847736	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35215849	0.89[CHB][hapmap];0.82[CHD][hapmap];0.81[GIH][hapmap];0.90[MEX][hapmap];0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs35684639	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4443171	0.84[CHD][hapmap]
rs6763449	0.87[ASN][1000 genomes]
rs6770718	0.87[ASN][1000 genomes]
rs6771277	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6782241	0.87[JPT][hapmap];0.80[AMR][1000 genomes]
rs6785190	0.81[EUR][1000 genomes]
rs6801296	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs6805498	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6806454	0.80[AMR][1000 genomes]
rs7613116	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7619493	1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.93[JPT][hapmap];0.80[MEX][hapmap];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7630558	0.84[CHB][hapmap];0.86[CHD][hapmap];0.97[GIH][hapmap];0.80[JPT][hapmap];0.80[MEX][hapmap];0.80[AMR][1000 genomes]
rs7634457	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9310001	1.00[CEU][hapmap];0.92[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9810027	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9816329	0.89[ASW][hapmap];0.93[CEU][hapmap];0.84[CHB][hapmap];0.83[CHD][hapmap];0.94[GIH][hapmap];0.82[JPT][hapmap];0.82[LWK][hapmap];0.89[MKK][hapmap];0.95[TSI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9824878	0.90[YRI][hapmap]
rs9824909	0.87[JPT][hapmap];0.95[YRI][hapmap]
rs9828350	0.84[CHD][hapmap];0.87[JPT][hapmap];0.95[YRI][hapmap]
rs9829960	0.89[GIH][hapmap]
rs9830762	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9838412	1.00[CEU][hapmap];0.84[CHB][hapmap];0.93[JPT][hapmap];0.85[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9842732	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9845052	1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.93[JPT][hapmap];0.80[MEX][hapmap];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9846504	0.87[JPT][hapmap];0.86[YRI][hapmap]
rs9847210	0.80[EUR][1000 genomes]
rs9858754	0.91[ASN][1000 genomes]
rs9862608	0.85[CEU][hapmap]
rs9866277	0.86[CHD][hapmap];0.97[GIH][hapmap];0.87[JPT][hapmap];0.80[LWK][hapmap];0.80[MEX][hapmap];0.95[YRI][hapmap]
rs9874892	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9881057	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:86111000-86119600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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