Variant report

Variant	rs61483057
Chromosome Location	chr3:150188515-150188516
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: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10513373	0.83[ASN][1000 genomes]
rs11711035	0.80[ASN][1000 genomes]
rs16862627	0.83[ASN][1000 genomes]
rs16862644	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16862676	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34173517	0.82[ASN][1000 genomes]
rs4423794	0.81[ASN][1000 genomes]
rs4488863	0.89[ASN][1000 genomes]
rs4681204	0.83[ASN][1000 genomes]
rs4681205	0.81[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs4681206	0.80[ASN][1000 genomes]
rs4681207	0.81[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs4681616	0.83[ASN][1000 genomes]
rs4681617	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59793956	0.81[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs73163692	0.80[ASN][1000 genomes]
rs73165707	0.81[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs9784335	0.80[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:30 , 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	chr3:150186400-150189000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:150187400-150188600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr3:150187400-150196200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr3:150187800-150189600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr3:150187800-150189800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr3:150187800-150190400	Weak transcription	Aorta	Aorta
12	chr3:150187800-150201400	Weak transcription	HSMMtube	muscle
13	chr3:150188000-150188800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr3:150188000-150188800	Weak transcription	Fetal Intestine Large	intestine
15	chr3:150188000-150189600	Weak transcription	Pancreas	Pancrea
16	chr3:150188000-150189600	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr3:150188000-150189800	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr3:150188200-150188600	Weak transcription	Placenta	Placenta
19	chr3:150188200-150188800	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr3:150188200-150189600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr3:150188200-150190000	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr3:150188200-150191200	Weak transcription	NHDF-Ad	bronchial
23	chr3:150188200-150197600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr3:150188200-150218800	Weak transcription	HSMM	muscle
25	chr3:150188400-150189000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr3:150188400-150189600	Weak transcription	K562	blood
27	chr3:150188400-150189800	Weak transcription	Fetal Intestine Small	intestine
28	chr3:150188400-150192200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr3:150188400-150193600	Weak transcription	Osteobl	bone
30	chr3:150188400-150193800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links