Variant report

Variant	rs3862275
Chromosome Location	chr1:47630501-47630502
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PDZK1IP1-5	chr1:47630182-47630515	NONHSAT003053

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11211420	0.91[MEX][hapmap];0.84[TSI][hapmap]
rs11211436	0.84[CHB][hapmap]
rs11579614	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11582907	0.82[MEX][hapmap]
rs11587879	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12141009	0.81[CHB][hapmap]
rs12563180	0.86[ASN][1000 genomes]
rs12564601	0.83[EUR][1000 genomes]
rs1553390	0.81[CHB][hapmap]
rs17102950	0.91[MEX][hapmap]
rs1832992	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2036462	0.81[CHB][hapmap]
rs2055498	0.91[MEX][hapmap]
rs2202222	1.00[ASW][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap]
rs2224621	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2292059	0.91[MEX][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap]
rs2292060	1.00[LWK][hapmap];0.91[MEX][hapmap];0.83[MKK][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap]
rs2897184	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2897185	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4926600	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4926919	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4927130	0.92[ASN][1000 genomes]
rs4927295	0.83[AFR][1000 genomes]
rs57697156	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs74077367	0.83[AFR][1000 genomes]
rs741957	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9699826	0.82[MEX][hapmap];0.81[TSI][hapmap]
rs9699991	1.00[YRI][hapmap]
rs9793989	0.91[MEX][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	nsv916813	chr1:47435635-47666179	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv871010	chr1:47533705-47637999	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv870899	chr1:47548974-47637999	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 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	chr1:47596400-47641000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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