Variant report

Variant	rs16987821
Chromosome Location	chr20:41775159-41775160
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs16987770	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16987781	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2867652	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2867653	1.00[ASN][1000 genomes]
rs4516501	0.93[ASN][1000 genomes]
rs4812674	1.00[ASN][1000 genomes]
rs6016965	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6030666	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6073000	1.00[ASN][1000 genomes]
rs73106034	1.00[ASN][1000 genomes]
rs73106039	1.00[ASN][1000 genomes]
rs73106041	1.00[ASN][1000 genomes]
rs73265850	0.90[EUR][1000 genomes]
rs869887	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs947201	1.00[ASN][1000 genomes]
rs947202	1.00[ASN][1000 genomes]
rs947203	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1063450	chr20:41409901-41880620	Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1060690	chr20:41413369-41851935	Enhancers ZNF genes & repeats Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1066088	chr20:41417205-42060036	Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	esv2751914	chr20:41744586-41890453	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:41774000-41775800	Enhancers	Brain Hippocampus Middle	brain
2	chr20:41774400-41775800	Enhancers	Brain Substantia Nigra	brain
3	chr20:41774800-41775200	Weak transcription	Brain Anterior Caudate	brain
4	chr20:41774800-41775200	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
5	chr20:41774800-41775400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr20:41774800-41775600	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr20:41775000-41775400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr20:41775000-41775800	Enhancers	Brain Cingulate Gyrus	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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