Variant report

Variant	rs6861004
Chromosome Location	chr5:97817930-97817931
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10043199	1.00[JPT][hapmap]
rs10463709	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10515274	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11241495	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11950934	1.00[JPT][hapmap]
rs12189186	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12657824	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs154197	1.00[JPT][hapmap]
rs17657926	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17658482	0.89[EUR][1000 genomes]
rs17714217	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1862374	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2032855	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2080993	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs27032	0.85[CHB][hapmap];0.88[JPT][hapmap]
rs3919570	0.86[EUR][1000 genomes]
rs4358552	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4562067	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs468238	1.00[JPT][hapmap]
rs4703085	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs56048042	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56201194	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58281947	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs58386439	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs59100135	0.91[EUR][1000 genomes]
rs59125454	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61419074	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6595339	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6595369	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6866878	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6873036	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72503456	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73772949	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73772950	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73772956	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73772957	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73772959	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73772962	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs754246	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882408	chr5:97616089-97836794	Enhancers Strong transcription ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv830419	chr5:97653713-97829079	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv1018555	chr5:97719032-97873906	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv882409	chr5:97761687-97817930	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases
5	nsv882411	chr5:97764867-97817930	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	n/a	n/a	inside rSNPs	diseases
6	nsv882412	chr5:97796120-97953719	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:97810800-97818000	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr5:97810800-97818200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr5:97811200-97818000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr5:97812600-97818000	Weak transcription	NHLF	lung
5	chr5:97815200-97821000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr5:97817800-97818000	Enhancers	Gastric	stomach
7	chr5:97817800-97818600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr5:97817800-97818800	Flanking Active TSS	NHDF-Ad	bronchial
9	chr5:97817800-97819400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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