Variant report

Variant	rs73162599
Chromosome Location	chr3:161131499-161131500
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:161003253..161016100-chr3:161121496..161137189,33	MCF-7	breast:
2	chr17:77812966..77815600-chr3:161129810..161132642,2	MCF-7	breast:
3	chr3:160964409..160966384-chr3:161129795..161132024,2	MCF-7	breast:
4	chr3:160821926..160824694-chr3:161130720..161134424,3	MCF-7	breast:
5	chr12:64385805..64388155-chr3:161131123..161133119,2	MCF-7	breast:
6	chr20:45986301..45988940-chr3:161130167..161132230,2	MCF-7	breast:
7	chr3:160934874..160951087-chr3:161118055..161142485,77	MCF-7	breast:
8	chr3:160937705..160941241-chr3:161127569..161134417,11	MCF-7	breast:
9	chr3:160811687..160814134-chr3:161129649..161132239,2	MCF-7	breast:
10	chr3:161041936..161043684-chr3:161128783..161133001,3	MCF-7	breast:
11	chr3:161007555..161015806-chr3:161127103..161142651,19	MCF-7	breast:
12	chr17:7387105..7389788-chr3:161131075..161133890,2	MCF-7	breast:
13	chr3:160887716..160889764-chr3:161129054..161131641,2	MCF-7	breast:
14	chr3:160818015..160820994-chr3:161127414..161132752,10	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000181222	Chromatin interaction
ENSG00000169251	Chromatin interaction
ENSG00000141582	Chromatin interaction
ENSG00000169255	Chromatin interaction
ENSG00000271052	Chromatin interaction
ENSG00000174282	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12163613	0.80[AMR][1000 genomes]
rs12633103	0.85[EUR][1000 genomes]
rs12636434	0.85[EUR][1000 genomes]
rs1450530	0.89[EUR][1000 genomes]
rs16832237	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16834031	0.85[EUR][1000 genomes]
rs55949838	0.85[EUR][1000 genomes]
rs60069838	0.80[AMR][1000 genomes]
rs6800515	0.89[EUR][1000 genomes]
rs73162580	1.00[ASN][1000 genomes]
rs73162584	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73162595	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73164106	0.80[AMR][1000 genomes]
rs73164124	0.80[AMR][1000 genomes]
rs73164129	0.80[AMR][1000 genomes]
rs73164152	0.80[AMR][1000 genomes]
rs73164176	0.80[AMR][1000 genomes]
rs73164178	0.90[AMR][1000 genomes]
rs73164187	0.80[AMR][1000 genomes]
rs73875500	0.85[EUR][1000 genomes]
rs73875502	0.85[EUR][1000 genomes]
rs73875621	0.80[AMR][1000 genomes]
rs73878303	0.85[EUR][1000 genomes]
rs73878304	0.85[EUR][1000 genomes]
rs73878305	0.85[EUR][1000 genomes]
rs7652447	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases
3	nsv829772	chr3:161047817-161202554	Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	88 gene(s)	inside rSNPs	diseases
4	nsv877710	chr3:161087857-161245414	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	84 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161123200-161132000	Enhancers	Stomach Mucosa	stomach
2	chr3:161124000-161133400	Weak transcription	Fetal Lung	lung
3	chr3:161125600-161137000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr3:161128000-161131600	Weak transcription	HUVEC	blood vessel
5	chr3:161128000-161133200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr3:161128000-161133400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr3:161128200-161133200	Weak transcription	NHEK	skin
8	chr3:161128200-161133600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:161128200-161134000	Weak transcription	Esophagus	oesophagus
10	chr3:161129200-161131800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:161129200-161131800	Enhancers	Hela-S3	cervix
12	chr3:161129600-161131800	Enhancers	HMEC	breast
13	chr3:161129600-161133200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr3:161129600-161134600	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr3:161130400-161131800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr3:161130400-161131800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr3:161130400-161131800	Enhancers	Brain Angular Gyrus	brain
18	chr3:161130600-161131600	Enhancers	Brain Hippocampus Middle	brain
19	chr3:161130600-161131800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr3:161130600-161131800	Enhancers	Brain Anterior Caudate	brain
21	chr3:161130600-161131800	Enhancers	Osteobl	bone
22	chr3:161130600-161132000	Enhancers	Adipose Nuclei	Adipose
23	chr3:161130600-161132000	Enhancers	NH-A	brain
24	chr3:161130600-161134800	Enhancers	Cortex derived primary cultured neurospheres	brain
25	chr3:161130800-161131600	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr3:161130800-161131800	Enhancers	Stomach Smooth Muscle	stomach
27	chr3:161130800-161131800	Enhancers	NHLF	lung
28	chr3:161131000-161131600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr3:161131000-161131600	Enhancers	Right Atrium	heart
30	chr3:161131000-161131600	Enhancers	Right Ventricle	heart
31	chr3:161131000-161131600	Enhancers	HSMMtube	muscle
32	chr3:161131000-161131600	Enhancers	NHDF-Ad	bronchial
33	chr3:161131000-161131800	Enhancers	Aorta	Aorta
34	chr3:161131000-161131800	Enhancers	Fetal Muscle Leg	muscle
35	chr3:161131000-161131800	Enhancers	Left Ventricle	heart
36	chr3:161131000-161131800	Enhancers	Pancreas	Pancrea
37	chr3:161131200-161131600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr3:161131200-161131600	Enhancers	Brain Inferior Temporal Lobe	brain
39	chr3:161131200-161131600	Enhancers	Brain Substantia Nigra	brain
40	chr3:161131200-161131600	Enhancers	Duodenum Smooth Muscle	Duodenum
41	chr3:161131200-161131600	Enhancers	Fetal Heart	heart
42	chr3:161131200-161131600	Enhancers	Skeletal Muscle Female	skeletal muscle
43	chr3:161131200-161131800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr3:161131200-161131800	Enhancers	Skeletal Muscle Male	skeletal muscle
45	chr3:161131400-161131600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
46	chr3:161131400-161131800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
47	chr3:161131400-161132200	Enhancers	GM12878-XiMat	blood
48	chr3:161131400-161132800	Weak transcription	Pancreatic Islets	Pancreatic Islet
49	chr3:161131400-161133000	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr3:161131400-161133800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links