Variant report

Variant	rs73560827
Chromosome Location	chr13:96587469-96587470
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:96586030..96588095-chr13:96594403..96597240,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1411556	0.81[AFR][1000 genomes]
rs35123499	1.00[AFR][1000 genomes]
rs57235111	1.00[AFR][1000 genomes]
rs57754676	1.00[AFR][1000 genomes]
rs57982590	0.82[AFR][1000 genomes]
rs58004448	0.86[AFR][1000 genomes]
rs59810714	0.96[AFR][1000 genomes]
rs59906993	0.93[AFR][1000 genomes]
rs60431735	1.00[AFR][1000 genomes]
rs73556778	0.97[AFR][1000 genomes]
rs73556783	1.00[AFR][1000 genomes]
rs73556788	1.00[AFR][1000 genomes]
rs73556793	1.00[AFR][1000 genomes]
rs73556796	1.00[AFR][1000 genomes]
rs73556802	1.00[AFR][1000 genomes]
rs73558615	1.00[AFR][1000 genomes]
rs73558627	0.82[AFR][1000 genomes]
rs73558628	1.00[AFR][1000 genomes]
rs73558636	1.00[AFR][1000 genomes]
rs73558639	1.00[AFR][1000 genomes]
rs73558645	1.00[AFR][1000 genomes]
rs73558663	1.00[AFR][1000 genomes]
rs73558678	1.00[AFR][1000 genomes]
rs73558684	1.00[AFR][1000 genomes]
rs73558693	0.87[AFR][1000 genomes]
rs73560812	0.87[AFR][1000 genomes]
rs73560818	0.87[AFR][1000 genomes]
rs73560819	0.87[AFR][1000 genomes]
rs73560823	1.00[AFR][1000 genomes]
rs73560841	1.00[AFR][1000 genomes]
rs73560858	0.86[AFR][1000 genomes]
rs73560873	0.86[AFR][1000 genomes]
rs73560886	0.86[AFR][1000 genomes]
rs73562904	0.86[AFR][1000 genomes]
rs73562906	0.86[AFR][1000 genomes]
rs73562913	0.86[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832691	chr13:96478098-96659823	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv900935	chr13:96497070-96631221	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1050430	chr13:96508530-97020734	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv541883	chr13:96508530-97020734	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv1041165	chr13:96522021-96966520	Enhancers Bivalent/Poised TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1051574	chr13:96550653-96779248	Strong transcription Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv1040320	chr13:96573646-96790859	Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96495000-96590800	Weak transcription	Rectal Smooth Muscle	rectum
2	chr13:96559800-96588600	Weak transcription	Gastric	stomach
3	chr13:96571000-96588600	Weak transcription	Psoas Muscle	Psoas
4	chr13:96577000-96623200	Weak transcription	NHLF	lung
5	chr13:96577200-96587600	Weak transcription	HepG2	liver
6	chr13:96577200-96598000	Weak transcription	HMEC	breast
7	chr13:96577800-96608800	Weak transcription	NHEK	skin
8	chr13:96579000-96587600	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr13:96580800-96588600	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr13:96581600-96589000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr13:96581600-96589600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr13:96582200-96587800	Weak transcription	Brain Angular Gyrus	brain
13	chr13:96582200-96588200	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr13:96582200-96588200	Weak transcription	Brain Substantia Nigra	brain
15	chr13:96582200-96588400	Weak transcription	Brain Anterior Caudate	brain
16	chr13:96582400-96587800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr13:96583200-96587800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr13:96583600-96587600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr13:96583800-96588600	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr13:96584000-96588200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr13:96584000-96599200	Weak transcription	Colonic Mucosa	Colon
22	chr13:96584200-96588000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr13:96584200-96588600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr13:96584200-96588600	Weak transcription	Esophagus	oesophagus
25	chr13:96584200-96588600	Weak transcription	Pancreas	Pancrea
26	chr13:96584200-96611000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr13:96584400-96587600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
28	chr13:96584600-96592000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr13:96584600-96592200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr13:96584600-96592800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr13:96584800-96589000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr13:96585000-96592600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr13:96585200-96592400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr13:96585800-96592200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr13:96586000-96587600	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr13:96586000-96589000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr13:96586000-96601200	Weak transcription	NHDF-Ad	bronchial
38	chr13:96586200-96588400	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
39	chr13:96586200-96589000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr13:96586200-96592400	Strong transcription	HSMM	muscle
41	chr13:96586400-96587600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
42	chr13:96586400-96588200	Strong transcription	Small Intestine	intestine
43	chr13:96586400-96588600	Strong transcription	Placenta	Placenta
44	chr13:96586400-96588800	ZNF genes & repeats	Fetal Muscle Leg	muscle
45	chr13:96586400-96588800	Strong transcription	Hela-S3	cervix
46	chr13:96586400-96589000	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
47	chr13:96586400-96589000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr13:96586400-96589000	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
49	chr13:96586400-96589000	Strong transcription	Fetal Kidney	kidney
50	chr13:96586400-96589000	Strong transcription	A549	lung

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