Variant report

Variant	rs4700283
Chromosome Location	chr5:57704465-57704466
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:57704438..57706069-chr5:57754618..57757293,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145632	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10513145	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10805507	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10940611	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11739498	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11740846	0.82[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs11745514	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11746649	0.86[ASN][1000 genomes]
rs11749794	0.82[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs11953112	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11958495	0.81[EUR][1000 genomes]
rs11959784	0.82[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs12515401	0.86[CHB][hapmap]
rs12522572	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13157057	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13159762	0.81[EUR][1000 genomes]
rs13168895	0.81[EUR][1000 genomes]
rs13174477	0.81[EUR][1000 genomes]
rs13176857	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs13187020	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1396503	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17709263	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17766068	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17766240	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34384235	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34415498	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35345509	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35917227	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3914030	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3932819	0.91[ASN][1000 genomes]
rs4090605	0.97[ASN][1000 genomes]
rs4700273	1.00[CHB][hapmap]
rs4700281	0.97[ASN][1000 genomes]
rs4700282	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56262220	0.86[ASN][1000 genomes]
rs62368176	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62368203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62368206	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs719427	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs719429	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs726842	0.81[EUR][1000 genomes]
rs7718063	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][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	nsv508358	chr5:57673230-57709684	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv1028460	chr5:57691003-57719435	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57699000-57705000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr5:57699600-57704600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr5:57699600-57708200	Enhancers	HMEC	breast
4	chr5:57699800-57704800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr5:57700000-57708000	Enhancers	NHEK	skin
6	chr5:57700400-57704600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr5:57701000-57705800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr5:57701400-57706400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr5:57702400-57705600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr5:57702400-57706600	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr5:57702800-57704600	Enhancers	HSMM	muscle
12	chr5:57702800-57705400	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr5:57703000-57704600	Enhancers	Placenta Amnion	Placenta Amnion
14	chr5:57703600-57704600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr5:57703600-57705800	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr5:57703600-57706800	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr5:57703600-57706800	Weak transcription	Hela-S3	cervix
18	chr5:57703600-57706800	Weak transcription	HSMMtube	muscle
19	chr5:57703800-57706000	Weak transcription	Osteobl	bone
20	chr5:57703800-57706800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr5:57703800-57708200	Enhancers	A549	lung
22	chr5:57704000-57706000	Weak transcription	NH-A	brain
23	chr5:57704200-57704600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr5:57704200-57704600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr5:57704200-57705400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr5:57704400-57704600	Enhancers	H9 Cell Line	embryonic stem cell
27	chr5:57704400-57704600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr5:57704400-57704600	Enhancers	Esophagus	oesophagus
29	chr5:57704400-57705400	Enhancers	ES-I3 Cell Line	embryonic stem cell
30	chr5:57704400-57705800	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr5:57704400-57706000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links