Variant report

Variant	rs73538140
Chromosome Location	chr9:97645220-97645221
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97579045..97581444-chr9:97644293..97648187,3	MCF-7	breast:
2	chr9:97643198..97646263-chr9:97646433..97648842,3	MCF-7	breast:
3	chr9:97644593..97646972-chr9:97683011..97686767,3	MCF-7	breast:
4	chr9:97622637..97624202-chr9:97643913..97646583,2	MCF-7	breast:
5	chr9:97640769..97645412-chr9:97646279..97650520,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs12553916	0.82[AFR][1000 genomes]
rs1382411	0.86[AFR][1000 genomes]
rs1382412	0.86[AFR][1000 genomes]
rs191654	0.82[AFR][1000 genomes]
rs2675168	0.82[AFR][1000 genomes]
rs356149	0.82[AFR][1000 genomes]
rs365465	0.82[AFR][1000 genomes]
rs3887267	0.82[AFR][1000 genomes]
rs397783	0.82[AFR][1000 genomes]
rs397806	0.82[AFR][1000 genomes]
rs41316526	0.86[AFR][1000 genomes]
rs422502	0.82[AFR][1000 genomes]
rs448899	0.82[AFR][1000 genomes]
rs58281499	0.82[AFR][1000 genomes]
rs58676982	1.00[AMR][1000 genomes]
rs59596055	1.00[AMR][1000 genomes]
rs60120	0.82[AFR][1000 genomes]
rs60553517	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60856972	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61086657	0.82[AFR][1000 genomes]
rs66642068	0.86[AFR][1000 genomes]
rs66710673	0.82[AFR][1000 genomes]
rs66863985	0.86[AFR][1000 genomes]
rs67208365	0.82[AFR][1000 genomes]
rs68091393	0.82[AFR][1000 genomes]
rs7037239	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73523301	1.00[AMR][1000 genomes]
rs73524654	1.00[AMR][1000 genomes]
rs73524810	1.00[AMR][1000 genomes]
rs73526528	1.00[AMR][1000 genomes]
rs73526540	1.00[AMR][1000 genomes]
rs73526548	1.00[AMR][1000 genomes]
rs73526572	1.00[AMR][1000 genomes]
rs73528441	1.00[AMR][1000 genomes]
rs73530354	1.00[AMR][1000 genomes]
rs73532323	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73532332	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73532340	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73532355	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73534109	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73534113	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73534154	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73534159	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73536042	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73536067	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73536074	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73537487	1.00[AMR][1000 genomes]
rs73538152	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73538177	0.86[AFR][1000 genomes]
rs73539427	1.00[AMR][1000 genomes]
rs73539428	1.00[AMR][1000 genomes]
rs73540059	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73540062	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73540077	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73540089	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7858775	1.00[AMR][1000 genomes]
rs9409805	0.82[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97631800-97645600	Weak transcription	Small Intestine	intestine
2	chr9:97632000-97646000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr9:97633400-97646800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr9:97633400-97671800	Weak transcription	Esophagus	oesophagus
5	chr9:97634000-97646600	Weak transcription	Spleen	Spleen
6	chr9:97634000-97646800	Weak transcription	Stomach Mucosa	stomach
7	chr9:97635200-97645600	Weak transcription	Placenta	Placenta
8	chr9:97638400-97647600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr9:97638600-97661800	Weak transcription	Fetal Intestine Small	intestine
10	chr9:97640400-97646400	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr9:97640600-97645400	Weak transcription	Brain Cingulate Gyrus	brain
12	chr9:97640600-97645400	Weak transcription	Brain Substantia Nigra	brain
13	chr9:97640800-97645600	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr9:97641000-97645600	Weak transcription	Brain Anterior Caudate	brain
15	chr9:97641000-97647400	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr9:97641000-97648600	Enhancers	Fetal Heart	heart
17	chr9:97641000-97650000	Weak transcription	Brain Angular Gyrus	brain
18	chr9:97641200-97647800	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr9:97641400-97647400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr9:97641400-97647400	Weak transcription	Psoas Muscle	Psoas
21	chr9:97641600-97646600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr9:97641800-97647400	Weak transcription	Hela-S3	cervix
23	chr9:97641800-97647400	Weak transcription	K562	blood
24	chr9:97642600-97646400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr9:97642800-97646200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr9:97642800-97648800	Enhancers	Fetal Lung	lung
27	chr9:97643000-97646800	Enhancers	A549	lung
28	chr9:97643200-97646000	Enhancers	Fetal Kidney	kidney
29	chr9:97643400-97646400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr9:97643600-97646400	Enhancers	Aorta	Aorta
31	chr9:97643600-97647600	Weak transcription	NHEK	skin
32	chr9:97643800-97645400	Enhancers	Primary B cells from peripheral blood	blood
33	chr9:97643800-97645800	Enhancers	Primary hematopoietic stem cells	blood
34	chr9:97643800-97647400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr9:97643800-97647400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr9:97644000-97647400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr9:97644000-97647400	Weak transcription	HMEC	breast
38	chr9:97644200-97645400	Weak transcription	Osteobl	bone
39	chr9:97644400-97645400	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr9:97644400-97645400	Weak transcription	Brain Hippocampus Middle	brain
41	chr9:97644400-97645400	Weak transcription	Fetal Stomach	stomach
42	chr9:97644400-97645400	Weak transcription	HSMMtube	muscle
43	chr9:97644400-97646200	Enhancers	Cortex derived primary cultured neurospheres	brain
44	chr9:97644400-97646600	Weak transcription	Adipose Nuclei	Adipose
45	chr9:97644400-97647400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr9:97644400-97647400	Weak transcription	Ovary	ovary
47	chr9:97644400-97647400	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr9:97644400-97647400	Weak transcription	NHDF-Ad	bronchial
49	chr9:97644400-97647800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr9:97644400-97647800	Weak transcription	Fetal Muscle Leg	muscle

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