Variant report

Variant	rs9855668
Chromosome Location	chr3:179712403-179712404
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]
rs13323019	0.89[AFR][1000 genomes]
rs28575206	0.98[AFR][1000 genomes]
rs9631493	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs9816662	0.89[AFR][1000 genomes]
rs9820519	0.93[AFR][1000 genomes]
rs9833792	0.95[AFR][1000 genomes]
rs9849008	0.98[AFR][1000 genomes]
rs9851258	0.86[AFR][1000 genomes]
rs9855039	0.88[AFR][1000 genomes]
rs9855406	0.98[AFR][1000 genomes]
rs9855511	1.00[YRI][hapmap]
rs9858831	0.98[AFR][1000 genomes]
rs9859362	0.98[AFR][1000 genomes]
rs9859942	0.98[AFR][1000 genomes]
rs9877100	1.00[YRI][hapmap];0.98[AFR][1000 genomes]
rs9879437	0.82[AFR][1000 genomes]
rs9882951	1.00[YRI][hapmap];0.98[AFR][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	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
2	nsv829808	chr3:179574614-179754321	Strong transcription Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv534210	chr3:179666123-179899347	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1000756	chr3:179672703-179827373	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179700800-179721000	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr3:179703800-179725200	Weak transcription	Dnd41	blood
3	chr3:179710400-179725600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:179710600-179721000	Weak transcription	Brain Substantia Nigra	brain
5	chr3:179710800-179720400	Weak transcription	Brain Hippocampus Middle	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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