Variant report

Variant	rs10478480
Chromosome Location	chr5:119903803-119903804
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:119849515..119851535-chr5:119903167..119905944,2	K562	blood:
2	chr5:119889111..119891337-chr5:119901156..119903856,2	K562	blood:

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10042359	0.87[CEU][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10051708	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10059291	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10059446	0.94[CEU][hapmap];0.83[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10062263	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10062601	0.93[CEU][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10063554	0.93[CEU][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10063637	0.93[CEU][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10063663	0.94[CEU][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10063718	0.93[CEU][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10069225	0.87[CEU][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10069331	0.94[CEU][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10069672	0.94[CEU][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10069800	0.94[CEU][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10073813	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10074464	0.94[CEU][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10076191	0.93[CEU][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10077688	0.93[CEU][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10079794	0.94[CEU][hapmap];0.92[YRI][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10478475	0.93[CEU][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10478476	0.94[CEU][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10478477	0.93[CEU][hapmap];0.86[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10478479	0.93[CEU][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10478481	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10519639	0.93[CEU][hapmap];0.84[CHB][hapmap];0.86[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10519640	0.93[CEU][hapmap];0.84[CHB][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11750856	0.93[CEU][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12109575	0.93[CEU][hapmap]
rs1404304	0.87[CEU][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1524571	0.93[CEU][hapmap];0.84[CHB][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1524577	0.94[CEU][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1608668	0.94[CEU][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61159244	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6860323	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6864673	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6883663	0.94[CEU][hapmap];0.87[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs724896	0.94[CEU][hapmap];0.92[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73786521	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7442772	0.93[CEU][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7710645	0.94[CEU][hapmap];0.92[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7711004	0.93[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7712650	0.94[CEU][hapmap];0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7728478	0.94[CEU][hapmap];0.87[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs897308	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs897309	0.91[CEU][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9327149	0.94[CEU][hapmap];0.91[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9327150	0.94[CEU][hapmap];0.91[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9885295	0.93[CEU][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532200	chr5:119317901-120102513	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv830463	chr5:119806643-119968825	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv462427	chr5:119838923-119928674	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv599601	chr5:119838923-119928674	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1031453	chr5:119843593-120393038	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv948613	chr5:119861955-119999008	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv599602	chr5:119866504-120023393	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv949499	chr5:119869763-119999008	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv882787	chr5:119874306-119925692	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:119894600-119908200	Weak transcription	Fetal Lung	lung
2	chr5:119897800-119906800	Weak transcription	HSMMtube	muscle
3	chr5:119900000-119904000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr5:119900400-119904200	Weak transcription	HSMM	muscle
5	chr5:119902800-119904200	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr5:119902800-119904400	Enhancers	NHLF	lung
7	chr5:119902800-119904800	Enhancers	Osteobl	bone
8	chr5:119902800-119905000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr5:119902800-119905400	Enhancers	NHDF-Ad	bronchial
10	chr5:119903000-119904200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr5:119903000-119905200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr5:119903600-119905600	Genic enhancers	Muscle Satellite Cultured Cells	--
13	chr5:119903800-119904800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr5:119903800-119905400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links