Variant report

Variant	rs2962663
Chromosome Location	chr5:8923420-8923421
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10044975	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10066058	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10067632	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10067695	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11743231	0.85[ASN][1000 genomes]
rs11747031	0.85[ASN][1000 genomes]
rs11955530	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11960860	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12519046	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12522763	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2962657	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2962658	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2962661	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2962662	0.97[ASN][1000 genomes]
rs2962664	0.97[ASN][1000 genomes]
rs2962665	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2962666	0.97[ASN][1000 genomes]
rs2962667	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2962669	0.97[ASN][1000 genomes]
rs2962670	0.94[ASN][1000 genomes]
rs2962674	0.94[ASN][1000 genomes]
rs2962676	0.89[ASN][1000 genomes]
rs2962677	0.91[ASN][1000 genomes]
rs2962679	0.90[ASN][1000 genomes]
rs2962681	0.91[ASN][1000 genomes]
rs2963330	0.89[ASN][1000 genomes]
rs2963331	0.88[ASN][1000 genomes]
rs2963339	0.90[ASN][1000 genomes]
rs2963340	0.90[ASN][1000 genomes]
rs2963342	0.91[ASN][1000 genomes]
rs2963343	0.92[ASN][1000 genomes]
rs2963348	0.88[ASN][1000 genomes]
rs2963352	0.94[ASN][1000 genomes]
rs2963353	0.94[ASN][1000 genomes]
rs2963354	0.94[ASN][1000 genomes]
rs2963357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35444626	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4701829	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4701830	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4701831	0.83[ASN][1000 genomes]
rs4702597	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4702598	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4702599	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4702600	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58276868	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62356637	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62356640	0.85[ASN][1000 genomes]
rs6872260	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6875135	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6875415	0.85[ASN][1000 genomes]
rs6889793	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9313256	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9313258	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv881438	chr5:8728874-9695667	Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	21 gene(s)	inside rSNPs	diseases
2	esv3492014	chr5:8749469-9004066	Enhancers ZNF genes & repeats Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	esv3492015	chr5:8749469-9004066	Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv461944	chr5:8758041-9209831	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
5	nsv597069	chr5:8758041-9209831	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1016937	chr5:8824417-9402871	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
7	nsv537638	chr5:8824417-9402871	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
8	nsv918004	chr5:8824417-9402871	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
9	nsv830199	chr5:8855056-9024096	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv482764	chr5:8906261-9056262	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
11	nsv1016483	chr5:8908533-8978530	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv1020587	chr5:8910149-8976370	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv537639	chr5:8910149-8976370	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:8912800-8935600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:8923200-8925400	Enhancers	Dnd41	blood
3	chr5:8923400-8924600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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