Variant report

Variant	rs16860894
Chromosome Location	chr4:48050461-48050462
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10517203	1.00[AMR][1000 genomes]
rs10517205	1.00[AMR][1000 genomes]
rs1396048	1.00[AMR][1000 genomes]
rs16860890	1.00[AMR][1000 genomes]
rs16860898	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1911668	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2099742	1.00[AMR][1000 genomes]
rs4694881	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4694882	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs5005127	0.95[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6827424	1.00[AMR][1000 genomes]
rs6848406	1.00[AMR][1000 genomes]
rs73149663	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7690816	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3447039	chr4:47822266-48285222	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
2	nsv1013947	chr4:47915527-48052824	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv537082	chr4:47915527-48052824	Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1006745	chr4:47935250-48052824	Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv537083	chr4:47935250-48052824	Enhancers Active TSS Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:48038600-48053000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:48041600-48053000	Weak transcription	HMEC	breast
3	chr4:48045400-48052200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr4:48045800-48052600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr4:48048200-48050600	Enhancers	Primary hematopoietic stem cells	blood
6	chr4:48048200-48051400	Enhancers	Fetal Heart	heart
7	chr4:48048600-48051200	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr4:48048800-48050600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
9	chr4:48049000-48050600	Enhancers	Liver	Liver
10	chr4:48049000-48050600	Flanking Active TSS	GM12878-XiMat	blood
11	chr4:48049000-48051000	Enhancers	Primary B cells from peripheral blood	blood
12	chr4:48049400-48051800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr4:48049800-48050600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chr4:48049800-48050600	Enhancers	Primary T helper naive cells from peripheral blood	blood
15	chr4:48049800-48050600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr4:48049800-48050600	Enhancers	Primary T helper cells PMA-I stimulated	--
17	chr4:48049800-48050600	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr4:48049800-48050600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr4:48049800-48053800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr4:48050000-48050800	Weak transcription	Right Ventricle	heart
21	chr4:48050200-48050600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr4:48050200-48050600	Enhancers	Skeletal Muscle Male	skeletal muscle
23	chr4:48050200-48051600	Enhancers	Primary B cells from cord blood	blood
24	chr4:48050200-48054000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr4:48050400-48051400	Enhancers	Monocytes-CD14+_RO01746	blood

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