Variant report

Variant	rs58546718
Chromosome Location	chr9:110396324-110396325
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:110394129..110396586-chr9:110398841..110400820,2	MCF-7	breast:
2	chr9:110248310..110253856-chr9:110387888..110398318,15	MCF-7	breast:
3	chr9:110390994..110392626-chr9:110395732..110398370,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136826	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs59667261	0.95[ASN][1000 genomes]
rs61410266	0.91[ASN][1000 genomes]
rs7341759	0.82[ASN][1000 genomes]
rs7341900	0.81[EUR][1000 genomes]
rs884699	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][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	nsv530948	chr9:109760752-110413602	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv831683	chr9:110275212-110461288	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv893700	chr9:110365337-110451516	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110387000-110399600	Weak transcription	Colonic Mucosa	Colon
2	chr9:110390400-110399600	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr9:110390400-110400000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:110391800-110399600	Weak transcription	Pancreas	Pancrea
5	chr9:110392600-110399200	Weak transcription	Spleen	Spleen
6	chr9:110393200-110397800	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr9:110393400-110396400	Enhancers	Fetal Muscle Leg	muscle
8	chr9:110393400-110397800	Weak transcription	Primary monocytes fromperipheralblood	blood
9	chr9:110393400-110397800	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr9:110393600-110396400	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr9:110393600-110396400	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr9:110393600-110396400	Enhancers	Fetal Stomach	stomach
13	chr9:110393600-110399200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr9:110393800-110396400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr9:110393800-110396600	Enhancers	Fetal Intestine Small	intestine
16	chr9:110394200-110396400	Enhancers	iPS-15b Cell Line	embryonic stem cell
17	chr9:110394400-110397800	Weak transcription	Brain Anterior Caudate	brain
18	chr9:110394400-110398000	Weak transcription	Brain Cingulate Gyrus	brain
19	chr9:110394600-110397200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr9:110394600-110397800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr9:110394600-110398000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr9:110394800-110398200	Weak transcription	Duodenum Mucosa	Duodenum
23	chr9:110394800-110399000	Weak transcription	Colon Smooth Muscle	Colon
24	chr9:110394800-110399200	Weak transcription	Fetal Muscle Trunk	muscle
25	chr9:110394800-110399200	Weak transcription	Ovary	ovary
26	chr9:110394800-110399400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr9:110394800-110399600	Weak transcription	Lung	lung
28	chr9:110395000-110398800	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr9:110395400-110396400	Enhancers	Fetal Intestine Large	intestine
30	chr9:110395600-110396400	Enhancers	Stomach Mucosa	stomach
31	chr9:110395600-110397600	Weak transcription	Fetal Brain Female	brain
32	chr9:110395600-110399400	Weak transcription	Fetal Brain Male	brain
33	chr9:110395800-110396400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr9:110395800-110396400	Enhancers	Liver	Liver
35	chr9:110396000-110396400	Enhancers	Brain Hippocampus Middle	brain
36	chr9:110396000-110396400	Enhancers	Placenta Amnion	Placenta Amnion
37	chr9:110396000-110396400	Enhancers	Right Atrium	heart
38	chr9:110396000-110396400	Enhancers	Osteobl	bone
39	chr9:110396000-110397000	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr9:110396000-110399000	Weak transcription	A549	lung
41	chr9:110396200-110396400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
42	chr9:110396200-110396400	Enhancers	Small Intestine	intestine
43	chr9:110396200-110396400	Enhancers	HSMM	muscle
44	chr9:110396200-110397400	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr9:110396200-110397600	Weak transcription	Brain Substantia Nigra	brain
46	chr9:110396200-110397800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr9:110396200-110398000	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr9:110396200-110398000	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr9:110396200-110398000	Weak transcription	Fetal Thymus	thymus
50	chr9:110396200-110398600	Weak transcription	Adipose Nuclei	Adipose

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