Variant report

Variant	rs6879227
Chromosome Location	chr5:167177952-167177953
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10070839	0.86[CHB][hapmap]
rs10454965	0.84[JPT][hapmap]
rs10516038	1.00[CEU][hapmap];0.90[CHB][hapmap];0.80[JPT][hapmap];0.85[YRI][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11134472	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs11738000	0.92[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11750131	1.00[CEU][hapmap];0.89[CHB][hapmap];0.80[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12651802	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12657288	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13166995	0.85[EUR][1000 genomes]
rs13436455	0.96[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1364368	0.88[CEU][hapmap];0.83[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1364369	0.85[CHB][hapmap]
rs1421990	0.84[JPT][hapmap]
rs1834118	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2018599	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2336972	0.86[AMR][1000 genomes]
rs2337000	0.92[EUR][1000 genomes]
rs2911499	0.88[CEU][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2973664	0.95[CEU][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2973667	0.84[EUR][1000 genomes]
rs35366185	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4270713	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4479863	0.86[EUR][1000 genomes]
rs4583906	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4624810	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61165988	0.88[EUR][1000 genomes]
rs6861976	0.87[EUR][1000 genomes]
rs6862936	0.82[CEU][hapmap];0.88[EUR][1000 genomes]
rs6863601	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs6880746	0.80[CEU][hapmap];0.85[CHB][hapmap];0.84[JPT][hapmap]
rs6891311	0.87[EUR][1000 genomes]
rs6898256	0.82[EUR][1000 genomes]
rs7703401	0.96[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.88[EUR][1000 genomes];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	nsv932627	chr5:166744408-167290959	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1032559	chr5:167070888-167210684	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1027805	chr5:167082800-167285008	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:167171000-167181200	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr5:167171600-167181800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr5:167171800-167180000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr5:167171800-167180000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr5:167172400-167180400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr5:167177200-167178200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr5:167177200-167179000	Enhancers	HSMM	muscle
8	chr5:167177400-167178800	Enhancers	Muscle Satellite Cultured Cells	--
9	chr5:167177600-167178800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr5:167177800-167178000	Weak transcription	HSMMtube	muscle
11	chr5:167177800-167178600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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