Variant report

Variant	rs73896368
Chromosome Location	chr20:11354229-11354230
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:11351053..11352921-chr20:11353499..11355342,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11698237	1.00[AMR][1000 genomes]
rs13433255	1.00[AMR][1000 genomes]
rs2207115	1.00[AMR][1000 genomes]
rs57336143	1.00[AMR][1000 genomes]
rs58524115	1.00[AMR][1000 genomes]
rs58755628	1.00[AMR][1000 genomes]
rs60852377	1.00[AMR][1000 genomes]
rs6104756	1.00[AMR][1000 genomes]
rs6108971	1.00[AMR][1000 genomes]
rs6108972	1.00[AMR][1000 genomes]
rs6108973	1.00[AMR][1000 genomes]
rs6108984	1.00[AMR][1000 genomes]
rs6108987	1.00[AMR][1000 genomes]
rs6108991	1.00[AMR][1000 genomes]
rs61136676	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7267502	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73259525	1.00[AMR][1000 genomes]
rs73896349	1.00[AMR][1000 genomes]
rs73896362	1.00[AMR][1000 genomes]
rs73896367	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73896370	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73896387	1.00[AMR][1000 genomes]
rs73896399	1.00[AMR][1000 genomes]
rs73896400	1.00[AMR][1000 genomes]
rs73899009	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1065969	chr20:10850562-11464172	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv544181	chr20:10850562-11464172	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv585415	chr20:11134907-11383327	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:11335000-11355400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr20:11345400-11360000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr20:11346600-11358600	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr20:11346800-11360000	Weak transcription	Psoas Muscle	Psoas
5	chr20:11347800-11356000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr20:11348000-11354400	Weak transcription	HMEC	breast
7	chr20:11350400-11356600	Weak transcription	Fetal Kidney	kidney
8	chr20:11350400-11360200	Weak transcription	Pancreas	Pancrea
9	chr20:11351200-11358600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr20:11352000-11355200	Enhancers	Cortex derived primary cultured neurospheres	brain
11	chr20:11352000-11358800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr20:11352800-11358600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr20:11353000-11354600	Enhancers	Fetal Muscle Leg	muscle
14	chr20:11353200-11354400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr20:11353200-11354600	Enhancers	Brain Germinal Matrix	brain
16	chr20:11353200-11354800	Enhancers	Fetal Brain Male	brain
17	chr20:11353400-11354400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr20:11353400-11354400	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr20:11353400-11354400	Enhancers	iPS-20b Cell Line	embryonic stem cell
20	chr20:11353400-11354600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr20:11353400-11354600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr20:11353400-11354600	Enhancers	HSMMtube	muscle
23	chr20:11353600-11354400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr20:11353600-11354400	Enhancers	iPS-18 Cell Line	embryonic stem cell
25	chr20:11353600-11354600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr20:11353600-11354600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr20:11353600-11354600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr20:11353600-11354600	Enhancers	Brain Angular Gyrus	brain
29	chr20:11353600-11354600	Enhancers	Brain Inferior Temporal Lobe	brain
30	chr20:11353600-11354600	Enhancers	Brain Substantia Nigra	brain
31	chr20:11353600-11354600	Enhancers	Ovary	ovary
32	chr20:11353600-11354600	Enhancers	Skeletal Muscle Female	skeletal muscle
33	chr20:11353600-11354800	Enhancers	Brain Hippocampus Middle	brain
34	chr20:11353600-11359400	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr20:11353800-11354400	Enhancers	H1 Cell Line	embryonic stem cell
36	chr20:11353800-11354400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr20:11353800-11354400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr20:11353800-11354400	Enhancers	Esophagus	oesophagus
39	chr20:11353800-11354600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr20:11353800-11354600	Enhancers	Brain Anterior Caudate	brain
41	chr20:11353800-11354600	Enhancers	Right Atrium	heart
42	chr20:11353800-11354600	Enhancers	NH-A	brain
43	chr20:11353800-11356400	Enhancers	Hela-S3	cervix
44	chr20:11354000-11354600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
45	chr20:11354000-11358600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr20:11354000-11358600	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr20:11354200-11354600	Enhancers	Brain Cingulate Gyrus	brain
48	chr20:11354200-11358800	Weak transcription	HUES48 Cell Line	embryonic stem cell

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