Variant report

Variant	rs34173517
Chromosome Location	chr3:150188335-150188336
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150187416..150190309-chr3:150261431..150263181,3	MCF-7	breast:
2	chr3:150123757..150127471-chr3:150187703..150191625,4	K562	blood:
3	chr3:150177406..150179513-chr3:150187577..150189487,2	MCF-7	breast:
4	chr3:150159431..150161352-chr3:150187171..150189025,2	K562	blood:
5	chr3:150179991..150182709-chr3:150186253..150188637,2	MCF-7	breast:
6	chr3:150126101..150131626-chr3:150185402..150190474,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196428	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11706245	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs13080841	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs13080858	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1450344	0.85[ASN][1000 genomes]
rs1584586	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1868673	0.85[ASN][1000 genomes]
rs28514580	0.81[ASN][1000 genomes]
rs4681619	0.80[ASN][1000 genomes]
rs61483057	0.82[ASN][1000 genomes]
rs6792759	0.80[ASN][1000 genomes]
rs9784281	0.80[ASN][1000 genomes]
rs9813752	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877645	chr3:150103135-150212698	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150172600-150191600	Weak transcription	Brain Angular Gyrus	brain
2	chr3:150177000-150200600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr3:150179200-150201000	Weak transcription	Fetal Lung	lung
4	chr3:150180000-150192600	Weak transcription	Fetal Kidney	kidney
5	chr3:150184400-150188400	Enhancers	HUVEC	blood vessel
6	chr3:150185600-150190400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:150186000-150188400	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr3:150186400-150188400	Enhancers	Muscle Satellite Cultured Cells	--
9	chr3:150186400-150189000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr3:150186800-150188400	Enhancers	NHLF	lung
11	chr3:150187000-150188400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:150187000-150188400	Enhancers	Fetal Intestine Small	intestine
13	chr3:150187000-150188400	Flanking Active TSS	A549	lung
14	chr3:150187000-150188400	Enhancers	Osteobl	bone
15	chr3:150187200-150188400	Enhancers	Stomach Mucosa	stomach
16	chr3:150187400-150188600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:150187400-150196200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr3:150187800-150189600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr3:150187800-150189800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr3:150187800-150190400	Weak transcription	Aorta	Aorta
21	chr3:150187800-150201400	Weak transcription	HSMMtube	muscle
22	chr3:150188000-150188400	Enhancers	Stomach Smooth Muscle	stomach
23	chr3:150188000-150188400	Enhancers	Hela-S3	cervix
24	chr3:150188000-150188800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr3:150188000-150188800	Weak transcription	Fetal Intestine Large	intestine
26	chr3:150188000-150189600	Weak transcription	Pancreas	Pancrea
27	chr3:150188000-150189600	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr3:150188000-150189800	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr3:150188200-150188400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr3:150188200-150188400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr3:150188200-150188400	Enhancers	K562	blood
32	chr3:150188200-150188400	Enhancers	NH-A	brain
33	chr3:150188200-150188400	Active TSS	NHEK	skin
34	chr3:150188200-150188600	Weak transcription	Placenta	Placenta
35	chr3:150188200-150188800	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr3:150188200-150189600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr3:150188200-150190000	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr3:150188200-150191200	Weak transcription	NHDF-Ad	bronchial
39	chr3:150188200-150197600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr3:150188200-150218800	Weak transcription	HSMM	muscle

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