Variant report

Variant	rs58305401
Chromosome Location	chr9:72664186-72664187
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:72625560..72627184-chr9:72663529..72666454,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs58121128	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60109285	1.00[AMR][1000 genomes]
rs7025350	1.00[AMR][1000 genomes]
rs73446761	1.00[AMR][1000 genomes]
rs73448656	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73448659	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73448667	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73448674	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73448682	1.00[AMR][1000 genomes]
rs73451417	1.00[AMR][1000 genomes]
rs73451448	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73451458	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73452704	1.00[AMR][1000 genomes]
rs73452711	1.00[AMR][1000 genomes]
rs73452717	1.00[AMR][1000 genomes]
rs73452734	1.00[AMR][1000 genomes]
rs73458462	1.00[AMR][1000 genomes]
rs73458478	1.00[AMR][1000 genomes]
rs73458721	1.00[AMR][1000 genomes]
rs73458732	1.00[AMR][1000 genomes]
rs73460504	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73460506	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73460510	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73460516	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73460525	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73647292	1.00[AMR][1000 genomes]
rs73647298	1.00[AMR][1000 genomes]
rs73650513	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	nsv893438	chr9:72363992-72720438	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv1049457	chr9:72539144-72765913	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv831613	chr9:72586058-72740061	Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72659800-72664200	Weak transcription	Brain Germinal Matrix	brain
2	chr9:72660000-72664600	Weak transcription	Brain Cingulate Gyrus	brain
3	chr9:72660000-72665200	Transcr. at gene 5' and 3'	HSMMtube	muscle
4	chr9:72660000-72668400	Weak transcription	HUVEC	blood vessel
5	chr9:72660200-72668200	Weak transcription	Pancreas	Pancrea
6	chr9:72660200-72668400	Weak transcription	Gastric	stomach
7	chr9:72661000-72665000	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr9:72661600-72671600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr9:72661600-72672000	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr9:72661800-72664400	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr9:72661800-72665000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr9:72661800-72665400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr9:72661800-72665800	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr9:72661800-72671600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr9:72662000-72665000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr9:72662200-72665000	Enhancers	NHEK	skin
17	chr9:72662200-72665200	Enhancers	HMEC	breast
18	chr9:72662600-72664800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr9:72662800-72664200	Enhancers	Skeletal Muscle Female	skeletal muscle
20	chr9:72662800-72665000	Enhancers	Right Atrium	heart
21	chr9:72663000-72666400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr9:72663200-72664800	Enhancers	Left Ventricle	heart
23	chr9:72663200-72665000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr9:72663200-72665000	Enhancers	Lung	lung
25	chr9:72663200-72666400	Enhancers	Ovary	ovary
26	chr9:72663400-72664400	Enhancers	Skeletal Muscle Male	skeletal muscle
27	chr9:72663400-72664400	Enhancers	Spleen	Spleen
28	chr9:72663400-72665000	Genic enhancers	Fetal Muscle Leg	muscle
29	chr9:72663400-72665400	Transcr. at gene 5' and 3'	Stomach Smooth Muscle	stomach
30	chr9:72663600-72664200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr9:72663600-72664200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr9:72663600-72664400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr9:72663600-72664800	Enhancers	Brain Hippocampus Middle	brain
34	chr9:72663600-72664800	Enhancers	Esophagus	oesophagus
35	chr9:72663600-72664800	Enhancers	Psoas Muscle	Psoas
36	chr9:72663600-72665000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr9:72663600-72665000	Bivalent Enhancer	Placenta	Placenta
38	chr9:72663600-72665000	Enhancers	NHDF-Ad	bronchial
39	chr9:72663600-72665000	Enhancers	NHLF	lung
40	chr9:72663600-72665200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
41	chr9:72663600-72665200	Genic enhancers	HSMM	muscle
42	chr9:72663600-72665400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr9:72663600-72666600	Enhancers	Adipose Nuclei	Adipose
44	chr9:72663800-72664400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr9:72663800-72664400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr9:72663800-72664600	Strong transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr9:72663800-72664600	Enhancers	Rectal Mucosa Donor 29	rectum
48	chr9:72663800-72664600	Enhancers	Stomach Mucosa	stomach
49	chr9:72663800-72664800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr9:72663800-72664800	Enhancers	Brain Inferior Temporal Lobe	brain

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