Variant report

Variant	rs4889005
Chromosome Location	chr16:79678111-79678112
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10514466	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11150182	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11150185	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11150186	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12932212	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12935094	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1424235	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1808450	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2348181	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4889006	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6564685	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7204271	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8043576	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8055105	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[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	nsv573285	chr16:79158182-80127326	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv833295	chr16:79568878-79726768	Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv906992	chr16:79649394-79769790	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv530714	chr16:79661581-79925435	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:79666400-79682200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr16:79674400-79686400	Weak transcription	Fetal Thymus	thymus
3	chr16:79674800-79681600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr16:79675000-79678200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr16:79675000-79678400	Weak transcription	HMEC	breast
6	chr16:79675200-79678600	Weak transcription	HSMM	muscle
7	chr16:79675200-79679000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr16:79675200-79679200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr16:79675200-79679200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr16:79675200-79679400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr16:79675200-79685200	Weak transcription	Fetal Muscle Trunk	muscle
12	chr16:79675400-79678800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr16:79675400-79685200	Weak transcription	Fetal Muscle Leg	muscle
14	chr16:79675600-79678600	Weak transcription	HSMMtube	muscle
15	chr16:79675600-79679800	Weak transcription	Fetal Lung	lung
16	chr16:79676400-79687800	Weak transcription	Fetal Kidney	kidney
17	chr16:79677600-79679000	Enhancers	NHEK	skin
18	chr16:79677600-79679400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr16:79677800-79679400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	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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