Variant report

Variant	rs13080841
Chromosome Location	chr3:150189551-150189552
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150123757..150127701-chr3:150189205..150191844,3	K562	blood:
2	chr3:150187416..150190309-chr3:150261431..150263181,3	MCF-7	breast:
3	chr3:150123757..150127471-chr3:150187703..150191625,4	K562	blood:
4	chr3:150188835..150191561-chr3:150198800..150201621,2	MCF-7	breast:
5	chr3:150126101..150131626-chr3:150185402..150190474,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196428	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11706245	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13080858	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13082720	0.82[ASN][1000 genomes]
rs1450335	0.82[ASN][1000 genomes]
rs1450336	0.82[ASN][1000 genomes]
rs1450344	0.89[ASN][1000 genomes]
rs1584586	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs16862651	0.82[ASN][1000 genomes]
rs1868672	0.83[ASN][1000 genomes]
rs1868673	0.88[ASN][1000 genomes]
rs2167177	0.82[ASN][1000 genomes]
rs28514580	0.83[ASN][1000 genomes]
rs2868425	0.80[ASN][1000 genomes]
rs34173517	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4681615	0.82[ASN][1000 genomes]
rs4681619	0.82[ASN][1000 genomes]
rs6770424	0.83[ASN][1000 genomes]
rs6792759	0.82[ASN][1000 genomes]
rs6810143	0.83[ASN][1000 genomes]
rs7427177	0.82[ASN][1000 genomes]
rs7626725	0.82[ASN][1000 genomes]
rs7651353	0.82[ASN][1000 genomes]
rs7651989	0.82[ASN][1000 genomes]
rs9289810	0.82[ASN][1000 genomes]
rs9784281	0.82[ASN][1000 genomes]
rs9813752	0.83[ASN][1000 genomes]
rs9846873	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:29 , 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	chr3:150185600-150190400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:150187400-150196200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr3:150187800-150189600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:150187800-150189800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr3:150187800-150190400	Weak transcription	Aorta	Aorta
10	chr3:150187800-150201400	Weak transcription	HSMMtube	muscle
11	chr3:150188000-150189600	Weak transcription	Pancreas	Pancrea
12	chr3:150188000-150189600	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr3:150188000-150189800	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr3:150188200-150189600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:150188200-150190000	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr3:150188200-150191200	Weak transcription	NHDF-Ad	bronchial
17	chr3:150188200-150197600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr3:150188200-150218800	Weak transcription	HSMM	muscle
19	chr3:150188400-150189600	Weak transcription	K562	blood
20	chr3:150188400-150189800	Weak transcription	Fetal Intestine Small	intestine
21	chr3:150188400-150192200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr3:150188400-150193600	Weak transcription	Osteobl	bone
23	chr3:150188400-150193800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr3:150188600-150191000	Enhancers	Placenta	Placenta
25	chr3:150188600-150192800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr3:150188800-150190400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr3:150188800-150190400	Enhancers	Fetal Intestine Large	intestine
28	chr3:150189000-150189600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr3:150189200-150191600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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