Variant report

Variant	rs62337139
Chromosome Location	chr5:1984310-1984311
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NDUFS6-14	chr5:1984218-1984503	l_2849_chr5:1984217-2012113_testes

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11739308	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11739768	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11741348	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11742050	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11742124	0.83[EUR][1000 genomes]
rs11742732	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11743335	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11743444	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11743517	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11743549	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11746472	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11746477	0.83[EUR][1000 genomes]
rs11746480	0.82[EUR][1000 genomes]
rs11747860	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11748195	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17539841	0.85[EUR][1000 genomes]
rs2035612	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs28608609	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3950476	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs56144523	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62337127	0.83[AFR][1000 genomes]
rs62338660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62338665	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62338677	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62338679	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6860447	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6860916	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6861327	0.82[AFR][1000 genomes]
rs7725117	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7726401	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7726409	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817407	chr5:1495354-2191460	Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	107 gene(s)	inside rSNPs	diseases
2	nsv869236	chr5:1719263-2259100	Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	66 gene(s)	inside rSNPs	diseases
3	nsv915846	chr5:1891098-2167677	Active TSS Genic enhancers Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1026930	chr5:1898993-2126061	Bivalent/Poised TSS Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv427705	chr5:1950467-2115059	Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv4681	chr5:1967628-2010091	Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:1977200-1997000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr5:1983600-1984400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr5:1983800-1985800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr5:1984000-1984600	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr5:1984200-1984400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr5:1984200-1984400	Enhancers	Left Ventricle	heart

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