Variant report

Variant	rs60192794
Chromosome Location	chr20:52317186-52317187
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:149856801..149859523-chr20:52313745..52318047,3	MCF-7	breast:
2	chr20:46130741..46132539-chr20:52314779..52317752,2	MCF-7	breast:
3	chr1:109640911..109643550-chr20:52315642..52317565,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178096	Chromatin interaction
ENSG00000270066	Chromatin interaction
ENSG00000184260	Chromatin interaction
ENSG00000184270	Chromatin interaction
ENSG00000184678	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs16998327	0.93[AFR][1000 genomes]
rs58014966	0.92[AFR][1000 genomes]
rs60003803	0.94[AFR][1000 genomes]
rs6022675	0.81[AFR][1000 genomes]
rs6022677	0.81[AFR][1000 genomes]
rs6022679	0.81[AFR][1000 genomes]
rs61141992	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66951711	0.83[AFR][1000 genomes]
rs7264081	0.92[AFR][1000 genomes]
rs73134244	0.95[EUR][1000 genomes]
rs73134245	0.95[EUR][1000 genomes]
rs73134262	1.00[EUR][1000 genomes]
rs73283718	0.95[AFR][1000 genomes]
rs7348874	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1055342	chr20:52126973-52352323	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	214 gene(s)	inside rSNPs	diseases
2	esv3412883	chr20:52176349-52393416	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	250 gene(s)	inside rSNPs	diseases
3	nsv834007	chr20:52213864-52404557	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	174 gene(s)	inside rSNPs	diseases
4	nsv912935	chr20:52221906-52337118	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	101 gene(s)	inside rSNPs	diseases
5	nsv912936	chr20:52250876-52344962	Enhancers Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases
6	nsv912937	chr20:52251863-52344962	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases
7	esv34060	chr20:52251863-52702186	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	296 gene(s)	inside rSNPs	diseases
8	nsv912938	chr20:52276452-52328338	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
9	nsv437185	chr20:52300359-52330053	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:52309400-52324800	Weak transcription	Spleen	Spleen
2	chr20:52310200-52322000	Weak transcription	Fetal Muscle Trunk	muscle
3	chr20:52310400-52317200	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr20:52310400-52317400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr20:52310400-52317400	Weak transcription	Fetal Thymus	thymus
6	chr20:52311200-52317400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr20:52311400-52317600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr20:52313000-52318200	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr20:52313000-52324000	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr20:52313400-52318200	Enhancers	Monocytes-CD14+_RO01746	blood
11	chr20:52314600-52318400	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr20:52314800-52318200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr20:52315200-52323600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr20:52316000-52318200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr20:52316000-52318200	Enhancers	HepG2	liver
16	chr20:52316200-52330400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr20:52316400-52317600	Weak transcription	Primary hematopoietic stem cells	blood
18	chr20:52316400-52317800	Enhancers	Primary neutrophils fromperipheralblood	blood
19	chr20:52316600-52317400	Weak transcription	Primary T helper cells fromperipheralblood	blood
20	chr20:52316600-52317600	Weak transcription	Dnd41	blood
21	chr20:52316600-52322600	Weak transcription	A549	lung
22	chr20:52316800-52322600	Weak transcription	Primary B cells from cord blood	blood
23	chr20:52317000-52317800	Enhancers	Duodenum Mucosa	Duodenum
24	chr20:52317000-52318600	Enhancers	Primary T cells fromperipheralblood	blood
25	chr20:52317000-52318600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
26	chr20:52317000-52322600	Weak transcription	Adipose Nuclei	Adipose

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