Variant report

Variant	rs16872674
Chromosome Location	chr5:74931497-74931498
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-POLK-1	chr5:74931137-74931707	NONHSAT102215

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1018119	0.88[CHB][hapmap];0.92[CHD][hapmap];0.89[ASN][1000 genomes]
rs10515215	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16872589	0.88[CHB][hapmap];0.89[ASN][1000 genomes]
rs16872635	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs16872639	0.96[ASN][1000 genomes]
rs16872665	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16872670	0.89[GIH][hapmap];1.00[MEX][hapmap];0.86[AMR][1000 genomes]
rs16872720	1.00[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16872723	1.00[CEU][hapmap];0.89[JPT][hapmap];0.83[YRI][hapmap];0.93[EUR][1000 genomes]
rs16872724	0.89[JPT][hapmap];0.83[YRI][hapmap];0.81[EUR][1000 genomes]
rs16872726	0.86[CHB][hapmap];0.88[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];0.83[YRI][hapmap];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16872766	0.80[YRI][hapmap]
rs17672150	1.00[ASN][1000 genomes]
rs17672204	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1909720	0.89[ASN][1000 genomes]
rs1988728	0.88[CHB][hapmap];0.92[CHD][hapmap];0.89[ASN][1000 genomes]
rs2287708	0.81[EUR][1000 genomes]
rs2287709	0.89[JPT][hapmap];0.83[YRI][hapmap];0.81[EUR][1000 genomes]
rs2303648	0.86[CHB][hapmap];0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs55705647	0.89[ASN][1000 genomes]
rs5744566	0.88[CHB][hapmap];0.92[CHD][hapmap];0.81[ASN][1000 genomes]
rs5744567	0.88[CHB][hapmap];0.92[CHD][hapmap];0.81[ASN][1000 genomes]
rs5744572	0.81[ASN][1000 genomes]
rs5744578	0.88[CHB][hapmap];0.89[ASN][1000 genomes]
rs5744587	0.89[ASN][1000 genomes]
rs5744591	0.88[CHB][hapmap];0.89[ASN][1000 genomes]
rs5744594	0.89[ASN][1000 genomes]
rs5744612	0.88[CHB][hapmap];0.92[CHD][hapmap];0.89[ASN][1000 genomes]
rs5744661	0.88[CHB][hapmap];0.92[CHD][hapmap];0.89[ASN][1000 genomes]
rs5744681	0.89[ASN][1000 genomes]
rs58789089	0.89[ASN][1000 genomes]
rs59115766	0.93[EUR][1000 genomes]
rs60005967	0.93[EUR][1000 genomes]
rs60389922	0.93[EUR][1000 genomes]
rs60854109	0.89[ASN][1000 genomes]
rs61164763	0.89[ASN][1000 genomes]
rs73764925	0.81[ASN][1000 genomes]
rs73764928	0.89[ASN][1000 genomes]
rs73764930	0.89[ASN][1000 genomes]
rs73764931	0.96[ASN][1000 genomes]
rs73764932	0.96[ASN][1000 genomes]
rs767677	0.89[ASN][1000 genomes]
rs7714554	1.00[CEU][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882194	chr5:74656175-74946455	Strong transcription Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv882197	chr5:74692776-74946455	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv882199	chr5:74757758-74946455	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
4	nsv1027368	chr5:74759999-75663712	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
5	nsv882202	chr5:74808417-74946455	Strong transcription Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv518475	chr5:74863041-75411804	Strong transcription Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
7	esv1850196	chr5:74890618-75138443	Strong transcription Weak transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 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	chr5:74913800-74933600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr5:74916600-74931800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr5:74918400-74944200	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr5:74918800-74934000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr5:74920200-74936600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr5:74920400-74944200	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr5:74920600-74933400	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr5:74921800-74964400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr5:74922000-74931600	Weak transcription	Lung	lung
10	chr5:74922000-74932000	Weak transcription	Aorta	Aorta
11	chr5:74922000-74932400	Weak transcription	Fetal Intestine Small	intestine
12	chr5:74931400-74936400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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