Variant report

Variant	rs12486844
Chromosome Location	chr3:179538463-179538464
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs12106676	1.00[AMR][1000 genomes]
rs12486746	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.85[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12494578	0.83[AMR][1000 genomes]
rs16830834	0.83[AMR][1000 genomes]
rs16830848	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28633078	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28682295	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6785328	1.00[CHB][hapmap]
rs7625095	0.80[AMR][1000 genomes]
rs7625200	0.80[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829807	chr3:179527567-179745153	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 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	chr3:179529400-179539000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:179532000-179539000	Strong transcription	Dnd41	blood
3	chr3:179533800-179605000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr3:179537400-179538800	Enhancers	Brain Substantia Nigra	brain
5	chr3:179537600-179538600	Enhancers	Ovary	ovary
6	chr3:179537800-179543000	Weak transcription	Brain Cingulate Gyrus	brain
7	chr3:179537800-179599400	Weak transcription	Brain Anterior Caudate	brain
8	chr3:179538000-179542600	Weak transcription	Brain Angular Gyrus	brain
9	chr3:179538200-179540000	Weak transcription	Fetal Heart	heart
10	chr3:179538400-179539600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr3:179538400-179542800	Weak transcription	Brain Hippocampus Middle	brain
12	chr3:179538400-179543600	Weak transcription	Brain Inferior Temporal Lobe	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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