Variant report

Variant	rs255009
Chromosome Location	chr7:41227663-41227664
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:41218957..41220551-chr7:41225375..41228012,2	MCF-7	breast:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10245608	0.90[ASN][1000 genomes]
rs10951647	0.88[EUR][1000 genomes]
rs11975129	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs255008	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs255010	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs255013	0.94[EUR][1000 genomes]
rs255016	0.94[EUR][1000 genomes]
rs255018	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2877014	0.80[ASN][1000 genomes]
rs29533	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs29534	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs29535	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29536	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs29538	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6951590	0.80[ASN][1000 genomes]
rs6953774	0.81[ASN][1000 genomes]
rs6962962	0.82[ASN][1000 genomes]
rs6977875	0.82[ASN][1000 genomes]
rs756439	0.85[EUR][1000 genomes]
rs7781291	0.83[ASN][1000 genomes]
rs7789435	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv887989	chr7:41125447-41337044	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1028983	chr7:41165668-41635954	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv534465	chr7:41224437-41443498	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:41215400-41230400	Weak transcription	Pancreas	Pancrea
2	chr7:41225400-41231000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr7:41226000-41228000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr7:41226000-41231000	Enhancers	HUVEC	blood vessel
5	chr7:41226200-41227800	Enhancers	Hela-S3	cervix
6	chr7:41226400-41230400	Enhancers	Placenta	Placenta
7	chr7:41226400-41230600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr7:41226400-41230800	Enhancers	HMEC	breast
9	chr7:41226400-41231000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr7:41226400-41231000	Enhancers	NHEK	skin
11	chr7:41226600-41228600	Enhancers	Placenta Amnion	Placenta Amnion
12	chr7:41226800-41228600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr7:41226800-41229000	Enhancers	Muscle Satellite Cultured Cells	--
14	chr7:41226800-41229200	Enhancers	NH-A	brain
15	chr7:41226800-41230600	Enhancers	NHLF	lung
16	chr7:41226800-41230800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr7:41226800-41230800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr7:41226800-41231000	Enhancers	NHDF-Ad	bronchial
19	chr7:41227000-41228000	Enhancers	HSMM	muscle
20	chr7:41227000-41229200	Weak transcription	Aorta	Aorta
21	chr7:41227000-41229400	Weak transcription	Esophagus	oesophagus
22	chr7:41227000-41230200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr7:41227600-41227800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr7:41227600-41227800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr7:41227600-41227800	Enhancers	Osteobl	bone
26	chr7:41227600-41228600	Enhancers	HSMMtube	muscle
27	chr7:41227600-41230600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links