Variant report

Variant	rs73078474
Chromosome Location	chr3:56167091-56167092
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:56164542..56167534-chr3:56237841..56240212,2	MCF-7	breast:

Extended variants
information (count: 91 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs1023882	1.00[ASN][1000 genomes]
rs55926504	1.00[ASN][1000 genomes]
rs56132867	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56163631	1.00[ASN][1000 genomes]
rs56216904	1.00[ASN][1000 genomes]
rs56227347	1.00[ASN][1000 genomes]
rs56283068	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56304204	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56317923	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56378219	1.00[ASN][1000 genomes]
rs56383777	1.00[ASN][1000 genomes]
rs56988974	1.00[ASN][1000 genomes]
rs57708875	1.00[ASN][1000 genomes]
rs58067804	1.00[ASN][1000 genomes]
rs58720638	1.00[ASN][1000 genomes]
rs59412382	1.00[ASN][1000 genomes]
rs59923603	1.00[ASN][1000 genomes]
rs60120946	1.00[ASN][1000 genomes]
rs61092323	1.00[ASN][1000 genomes]
rs61163420	1.00[ASN][1000 genomes]
rs61248828	1.00[ASN][1000 genomes]
rs61524165	1.00[ASN][1000 genomes]
rs73072703	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73072704	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078455	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078456	0.92[AFR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078458	0.98[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078461	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078464	0.98[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73078465	0.98[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078470	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078477	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078479	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078482	1.00[ASN][1000 genomes]
rs73078483	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078485	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078488	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078496	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078547	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73080405	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73080407	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73080408	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73082476	1.00[ASN][1000 genomes]
rs73083357	1.00[ASN][1000 genomes]
rs73083359	1.00[ASN][1000 genomes]
rs73083368	1.00[ASN][1000 genomes]
rs73083374	1.00[ASN][1000 genomes]
rs73083379	1.00[ASN][1000 genomes]
rs73083381	1.00[ASN][1000 genomes]
rs73086157	1.00[ASN][1000 genomes]
rs73086168	1.00[ASN][1000 genomes]
rs73086178	1.00[ASN][1000 genomes]
rs73086185	1.00[ASN][1000 genomes]
rs73086190	1.00[ASN][1000 genomes]
rs73086191	1.00[ASN][1000 genomes]
rs73086196	1.00[ASN][1000 genomes]
rs73086422	1.00[ASN][1000 genomes]
rs73086435	1.00[ASN][1000 genomes]
rs73086436	1.00[ASN][1000 genomes]
rs73086437	1.00[ASN][1000 genomes]
rs73086439	1.00[ASN][1000 genomes]
rs73086440	1.00[ASN][1000 genomes]
rs73086441	1.00[ASN][1000 genomes]
rs73086449	1.00[ASN][1000 genomes]
rs73088517	1.00[ASN][1000 genomes]
rs73088520	1.00[ASN][1000 genomes]
rs73088522	1.00[ASN][1000 genomes]
rs73088532	1.00[ASN][1000 genomes]
rs73088534	1.00[ASN][1000 genomes]
rs73089162	1.00[ASN][1000 genomes]
rs73089166	1.00[ASN][1000 genomes]
rs73089189	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73089267	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73089280	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73091043	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091049	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091050	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091252	1.00[ASN][1000 genomes]
rs73091253	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091256	1.00[ASN][1000 genomes]
rs73091258	1.00[ASN][1000 genomes]
rs73091259	1.00[ASN][1000 genomes]
rs73091260	1.00[ASN][1000 genomes]
rs73091265	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091267	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091268	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091269	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091270	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7634259	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1009709	chr3:56000827-56294945	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56157800-56175400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:56160000-56170600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:56163000-56171400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:56164800-56168000	Enhancers	NHLF	lung
5	chr3:56164800-56168200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr3:56165200-56168800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr3:56165200-56170600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr3:56165400-56168200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:56165400-56168200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr3:56165400-56168800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:56165400-56168800	Enhancers	HSMM	muscle
12	chr3:56165600-56168000	Enhancers	HMEC	breast
13	chr3:56165600-56168200	Enhancers	NHEK	skin
14	chr3:56165600-56168200	Enhancers	Osteobl	bone
15	chr3:56165600-56168600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:56165800-56167200	Enhancers	Hela-S3	cervix
17	chr3:56165800-56168200	Enhancers	HUVEC	blood vessel
18	chr3:56166200-56167400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr3:56166200-56168000	Weak transcription	Brain Germinal Matrix	brain
20	chr3:56166400-56167600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr3:56166400-56167600	Weak transcription	HSMMtube	muscle
22	chr3:56166400-56168200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr3:56166400-56168200	Enhancers	NH-A	brain
24	chr3:56166400-56168600	Enhancers	NHDF-Ad	bronchial
25	chr3:56166400-56168800	Enhancers	Muscle Satellite Cultured Cells	--
26	chr3:56166400-56170400	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr3:56166400-56171000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr3:56166400-56173600	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr3:56166600-56167600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr3:56166600-56170200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr3:56166600-56170200	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr3:56166600-56171200	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr3:56166800-56169400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr3:56167000-56167200	Flanking Active TSS	A549	lung
35	chr3:56167000-56167600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links