Variant report

Variant	rs4024110
Chromosome Location	chr5:35919651-35919652
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:35918022..35920429-chr5:35920583..35922848,2	MCF-7	breast:

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1008756	0.83[ASN][1000 genomes]
rs1010599	0.83[ASN][1000 genomes]
rs1010601	0.83[ASN][1000 genomes]
rs1025039	0.83[ASN][1000 genomes]
rs10491434	0.84[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs10491435	0.80[EUR][1000 genomes]
rs1053496	0.85[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs11567699	0.84[CEU][hapmap];1.00[JPT][hapmap]
rs11567701	0.83[CEU][hapmap];1.00[JPT][hapmap]
rs11567751	0.84[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs11949691	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11950831	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11955657	0.94[ASN][1000 genomes]
rs11960511	0.84[EUR][1000 genomes]
rs1345827	0.83[ASN][1000 genomes]
rs1382347	1.00[JPT][hapmap]
rs1494554	0.84[CEU][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs1494571	0.85[CEU][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs16902573	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17376481	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs1833907	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2287900	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3194051	0.84[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs3734107	0.94[ASN][1000 genomes]
rs3822733	0.85[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs3866449	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4024109	1.00[ASN][1000 genomes]
rs55654952	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59030624	0.83[ASN][1000 genomes]
rs62351973	0.86[EUR][1000 genomes]
rs67207043	0.84[EUR][1000 genomes]
rs6859465	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6862692	0.83[ASN][1000 genomes]
rs6871116	0.92[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6873195	0.97[ASN][1000 genomes]
rs6878688	0.83[ASN][1000 genomes]
rs700179	1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs72742471	0.89[ASN][1000 genomes]
rs7702828	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7705615	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9764914	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs984164	0.83[ASN][1000 genomes]
rs987107	0.84[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs990716	0.96[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471011	chr5:35861068-36003217	Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv830261	chr5:35863084-36018048	Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1025695	chr5:35902486-36036934	Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv4794	chr5:35906690-35934205	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:35912400-35920000	Weak transcription	Thymus	Thymus
2	chr5:35915600-35924200	Weak transcription	Primary T cells from cord blood	blood
3	chr5:35918400-35920200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr5:35918600-35920000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr5:35918600-35920400	Enhancers	Muscle Satellite Cultured Cells	--
6	chr5:35918600-35920800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr5:35918800-35920000	Enhancers	Osteobl	bone
8	chr5:35918800-35920200	Enhancers	Hela-S3	cervix
9	chr5:35918800-35920200	Enhancers	HMEC	breast
10	chr5:35918800-35920200	Enhancers	HSMM	muscle
11	chr5:35918800-35920200	Enhancers	NHDF-Ad	bronchial
12	chr5:35919000-35919800	Enhancers	NHEK	skin
13	chr5:35919000-35920400	Enhancers	NHLF	lung
14	chr5:35919400-35920000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr5:35919400-35920800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr5:35919600-35920000	Enhancers	HSMMtube	muscle
17	chr5:35919600-35920400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr5:35919600-35920600	ZNF genes & repeats	Dnd41	blood
19	chr5:35919600-35921000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr5:35919600-35924200	Weak transcription	Primary T killer memory cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links