Variant report

Variant	rs1496516
Chromosome Location	chr3:89037358-89037359
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs13067189	1.00[AFR][1000 genomes]
rs1390697	1.00[AFR][1000 genomes]
rs1390707	1.00[AFR][1000 genomes]
rs1496511	1.00[AFR][1000 genomes]
rs1496517	1.00[AFR][1000 genomes]
rs1496519	1.00[AFR][1000 genomes]
rs1496520	1.00[AFR][1000 genomes]
rs1603448	1.00[AFR][1000 genomes]
rs2088302	1.00[AFR][1000 genomes]
rs2132586	1.00[AFR][1000 genomes]
rs2173041	1.00[AFR][1000 genomes]
rs2173042	1.00[AFR][1000 genomes]
rs2881280	1.00[AFR][1000 genomes]
rs4364170	1.00[AFR][1000 genomes]
rs4452333	1.00[AFR][1000 genomes]
rs4855795	1.00[AFR][1000 genomes]
rs4855824	1.00[AFR][1000 genomes]
rs6788395	1.00[AFR][1000 genomes]
rs6792141	1.00[AFR][1000 genomes]
rs7613904	1.00[AFR][1000 genomes]
rs903893	1.00[AFR][1000 genomes]
rs9284816	1.00[AFR][1000 genomes]
rs9844121	1.00[AFR][1000 genomes]
rs9880925	1.00[AFR][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	nsv834759	chr3:88901229-89105366	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1002060	chr3:88984502-89047104	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv536637	chr3:88984502-89047104	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv877158	chr3:89018866-89103302	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv877159	chr3:89018866-89207222	Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv525314	chr3:89031440-89051475	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89034400-89037600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:89035600-89037800	Enhancers	Osteobl	bone
3	chr3:89035600-89038800	Enhancers	NHEK	skin
4	chr3:89036200-89038800	Enhancers	HMEC	breast
5	chr3:89036400-89037400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr3:89036600-89037400	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr3:89036600-89037600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr3:89036600-89037600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr3:89036600-89037800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr3:89036600-89037800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:89036800-89037800	Enhancers	NH-A	brain
12	chr3:89037000-89038000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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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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