Variant report

Variant	rs6862936
Chromosome Location	chr5:167169471-167169472
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10045430	0.89[JPT][hapmap]
rs10045595	0.82[CEU][hapmap];0.83[TSI][hapmap]
rs10065043	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10454960	0.82[CEU][hapmap];0.87[TSI][hapmap]
rs10462970	0.87[CHB][hapmap]
rs10516038	0.82[CEU][hapmap];0.87[TSI][hapmap];0.85[EUR][1000 genomes]
rs11134468	0.95[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs11134471	0.82[CHB][hapmap]
rs11738000	0.84[TSI][hapmap]
rs11750131	0.82[CEU][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes]
rs11949355	0.92[ASN][1000 genomes]
rs11956673	0.93[ASN][1000 genomes]
rs12516791	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12520082	0.95[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12520148	0.90[JPT][hapmap]
rs12651802	0.86[EUR][1000 genomes]
rs12657288	0.86[EUR][1000 genomes]
rs13436455	0.86[CEU][hapmap];0.87[YRI][hapmap];0.90[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs1364368	0.84[TSI][hapmap]
rs1364370	0.87[CHB][hapmap];0.81[CHD][hapmap];0.87[GIH][hapmap];0.90[JPT][hapmap]
rs17069129	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs1834118	0.85[EUR][1000 genomes]
rs2018599	0.86[EUR][1000 genomes]
rs2337000	0.91[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2337017	0.90[JPT][hapmap]
rs2337018	0.85[JPT][hapmap]
rs279402	0.90[JPT][hapmap]
rs2911499	0.84[TSI][hapmap]
rs2973664	0.87[TSI][hapmap];0.81[EUR][1000 genomes]
rs35366185	0.95[EUR][1000 genomes]
rs4479863	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4583906	0.95[EUR][1000 genomes]
rs4624810	0.86[CEU][hapmap];0.94[EUR][1000 genomes]
rs4628015	0.90[JPT][hapmap]
rs4868807	0.82[CHB][hapmap]
rs4869067	0.89[JPT][hapmap]
rs4869068	0.96[ASN][1000 genomes]
rs58347375	0.97[ASN][1000 genomes]
rs61165988	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67767662	0.99[ASN][1000 genomes]
rs6861976	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6863601	0.84[TSI][hapmap]
rs6869167	0.97[ASN][1000 genomes]
rs6879227	0.82[CEU][hapmap];0.88[EUR][1000 genomes]
rs6891311	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];0.88[MKK][hapmap];0.96[TSI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6895940	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs6898153	0.84[JPT][hapmap]
rs7703401	0.86[CEU][hapmap];0.92[EUR][1000 genomes]
rs7717495	0.86[JPT][hapmap]
rs7730435	0.82[CHB][hapmap]
rs7737681	0.87[CHB][hapmap]

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:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:167152600-167170000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr5:167157800-167170200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr5:167158000-167170000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr5:167158000-167170000	Weak transcription	NH-A	brain
5	chr5:167158000-167170600	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr5:167158800-167170800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr5:167159200-167171000	Weak transcription	HSMM	muscle
8	chr5:167164800-167169800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr5:167165200-167170800	Weak transcription	Fetal Lung	lung
10	chr5:167167000-167170600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr5:167167000-167170600	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr5:167167000-167171200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr5:167167400-167170000	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr5:167167400-167170000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr5:167167600-167170000	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr5:167169200-167169800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr5:167169200-167170200	Weak transcription	Muscle Satellite Cultured Cells	--

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