Variant report

Variant	rs2968082
Chromosome Location	chr19:21609743-21609744
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF708-1	chr19:21608886-21610284	ENSG00000196686

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs1114305	1.00[CHB][hapmap];0.92[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1875256	0.84[EUR][1000 genomes]
rs2086319	0.93[CHB][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2434996	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2562402	1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2562409	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2562415	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2562435	0.93[CHB][hapmap]
rs2562438	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2562456	0.80[CHB][hapmap]
rs2562487	0.80[ASN][1000 genomes]
rs2650793	0.93[CHB][hapmap]
rs2650797	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2650798	0.93[CHB][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2650805	0.93[CHB][hapmap]
rs2650842	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2650849	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2650851	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs279804	0.85[EUR][1000 genomes]
rs279805	0.85[EUR][1000 genomes]
rs279810	0.85[EUR][1000 genomes]
rs279811	0.85[EUR][1000 genomes]
rs279812	0.85[EUR][1000 genomes]
rs279814	0.85[EUR][1000 genomes]
rs279815	0.85[EUR][1000 genomes]
rs279816	0.85[EUR][1000 genomes]
rs279819	0.82[EUR][1000 genomes]
rs279820	0.85[EUR][1000 genomes]
rs2914626	1.00[CHB][hapmap];0.81[JPT][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2914627	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2914645	0.91[CHB][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2928188	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2928209	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2928216	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2928218	0.83[CHB][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2937157	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2937174	0.93[CHB][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2968022	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2968023	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2968024	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2968040	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2968041	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2968045	0.93[CHB][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2968046	1.00[CHB][hapmap];0.92[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2968066	0.92[EUR][1000 genomes]
rs2968086	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs472472	0.93[CHB][hapmap];0.92[EUR][1000 genomes]
rs475162	0.92[EUR][1000 genomes]
rs476376	0.85[EUR][1000 genomes]
rs478046	0.85[EUR][1000 genomes]
rs4809145	0.92[CHB][hapmap]
rs487991	0.92[EUR][1000 genomes]
rs489613	0.83[AMR][1000 genomes]
rs489845	0.93[CHB][hapmap];0.92[EUR][1000 genomes]
rs492271	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs499445	0.93[CHB][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs501563	0.92[CHB][hapmap];0.92[EUR][1000 genomes]
rs504026	0.85[EUR][1000 genomes]
rs508656	0.85[EUR][1000 genomes]
rs511469	0.85[EUR][1000 genomes]
rs527060	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs537114	0.85[EUR][1000 genomes]
rs540637	0.85[EUR][1000 genomes]
rs540714	0.85[EUR][1000 genomes]
rs541639	0.93[CHB][hapmap];0.85[EUR][1000 genomes]
rs547516	0.92[EUR][1000 genomes]
rs555596	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs583680	0.85[EUR][1000 genomes]
rs586144	0.86[EUR][1000 genomes]
rs598959	0.93[CHB][hapmap];0.92[EUR][1000 genomes]
rs600186	0.93[CHB][hapmap];0.86[EUR][1000 genomes]
rs609806	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs612877	0.92[EUR][1000 genomes]
rs627522	0.86[CHB][hapmap]
rs631436	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6511253	0.93[CHB][hapmap]
rs651454	0.92[EUR][1000 genomes]
rs661453	0.85[EUR][1000 genomes]
rs8102235	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8112775	0.93[CHB][hapmap];0.92[EUR][1000 genomes]
rs924485	0.87[CHB][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3518033	chr19:21278465-21747567	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	esv3518034	chr19:21278465-21747567	ZNF genes & repeats Weak transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	esv3414204	chr19:21301761-21839451	ZNF genes & repeats Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	esv3325271	chr19:21445407-21792817	Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	nsv911420	chr19:21454672-21613397	ZNF genes & repeats Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
6	esv2751783	chr19:21465822-21726337	Strong transcription ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
7	esv3363678	chr19:21483148-21756908	Strong transcription Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
8	nsv578952	chr19:21535707-21868584	Genic enhancers Active TSS ZNF genes & repeats Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
9	nsv911421	chr19:21579718-21613397	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:21585000-21614000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr19:21593400-21610200	ZNF genes & repeats	Liver	Liver
3	chr19:21599600-21611000	ZNF genes & repeats	Adipose Nuclei	Adipose
4	chr19:21600000-21613000	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr19:21604400-21610400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
6	chr19:21605600-21610800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr19:21605600-21610800	Weak transcription	Ovary	ovary
8	chr19:21607600-21630200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr19:21609000-21610000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell

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