Variant report

Variant	rs9662179
Chromosome Location	chr1:224849203-224849204
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-WDR26-6	chr1:224848875-224849588	NONHSAT009821

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10158430	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10458376	0.98[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10495223	0.86[ASW][hapmap];0.81[LWK][hapmap]
rs10495224	0.81[ASW][hapmap];0.80[LWK][hapmap]
rs10799276	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10915692	0.82[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12030079	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12030696	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12032349	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.89[MKK][hapmap];0.92[TSI][hapmap];0.80[YRI][hapmap];0.98[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12041370	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.90[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.92[TSI][hapmap];0.80[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12046028	0.90[MEX][hapmap];0.88[TSI][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12133496	0.86[ASW][hapmap];0.83[LWK][hapmap]
rs1499281	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1499282	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.92[TSI][hapmap];0.80[YRI][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17513562	0.82[GIH][hapmap];0.89[MEX][hapmap];0.81[TSI][hapmap];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17514252	0.85[ASW][hapmap];0.82[GIH][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.89[TSI][hapmap];0.98[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17514370	0.98[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17573714	0.85[ASW][hapmap];0.88[LWK][hapmap];0.86[MKK][hapmap];0.89[TSI][hapmap];0.98[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1846501	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs298736	0.85[TSI][hapmap];0.84[EUR][1000 genomes]
rs3738363	0.82[GIH][hapmap];0.90[MEX][hapmap];0.89[TSI][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3738365	0.82[GIH][hapmap];0.90[MEX][hapmap];0.89[TSI][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4564105	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4653593	0.91[AMR][1000 genomes]
rs55744530	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56121354	0.98[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56228106	0.98[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56365526	0.98[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs57395227	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58715712	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs59962884	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6426145	0.86[ASW][hapmap];0.81[LWK][hapmap]
rs6656922	0.95[AMR][1000 genomes]
rs6665737	0.98[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs722849	0.89[MEX][hapmap];0.89[TSI][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7513639	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7521221	0.80[YRI][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7525096	0.85[ASW][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.89[TSI][hapmap];0.98[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7537218	0.98[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7547239	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7549891	0.85[LWK][hapmap];0.90[MEX][hapmap];0.82[TSI][hapmap];0.98[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs930323	1.00[MEX][hapmap];0.89[TSI][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9660752	0.86[CHB][hapmap]
rs9660759	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9660787	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9661696	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9661955	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9662190	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.92[TSI][hapmap];0.80[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9725216	0.90[MEX][hapmap];0.95[AMR][1000 genomes]
rs9725225	0.95[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014717	chr1:224551939-224885543	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv535311	chr1:224551939-224885543	Strong transcription Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:224828800-224853400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:224832200-224884400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr1:224832800-224869000	Weak transcription	Dnd41	blood
4	chr1:224833200-224874400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr1:224838400-224853200	Weak transcription	Psoas Muscle	Psoas
6	chr1:224840800-224850800	Weak transcription	NHDF-Ad	bronchial
7	chr1:224840800-224856800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr1:224840800-224858000	Weak transcription	NH-A	brain
9	chr1:224841000-224856600	Weak transcription	Pancreas	Pancrea
10	chr1:224844600-224852800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr1:224848200-224851400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr1:224848800-224849400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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