Variant report

Variant	rs9842144
Chromosome Location	chr3:78993116-78993117
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10511126	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs10514741	0.88[YRI][hapmap]
rs13317939	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13321050	0.96[YRI][hapmap];0.84[AFR][1000 genomes]
rs13321792	0.96[YRI][hapmap];0.84[AFR][1000 genomes]
rs13321973	0.84[AFR][1000 genomes]
rs13322089	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13325291	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13325521	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs1480685	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1480686	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs162819	1.00[CEU][hapmap]
rs162873	1.00[CEU][hapmap]
rs162875	1.00[CEU][hapmap]
rs167944	1.00[CEU][hapmap]
rs17016495	1.00[CEU][hapmap]
rs17016507	1.00[CEU][hapmap]
rs17016511	1.00[CEU][hapmap]
rs17016573	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs17016593	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs17016641	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs17016648	0.92[YRI][hapmap]
rs2125123	1.00[CEU][hapmap]
rs2271575	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28412538	0.81[AFR][1000 genomes]
rs28431826	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28564735	1.00[EUR][1000 genomes]
rs28611062	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28667917	0.86[AFR][1000 genomes]
rs331132	1.00[CEU][hapmap]
rs331133	1.00[CEU][hapmap]
rs331159	1.00[CEU][hapmap]
rs333499	1.00[CEU][hapmap]
rs58608513	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59931439	0.92[EUR][1000 genomes]
rs72904273	0.92[EUR][1000 genomes]
rs72904277	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72906141	0.92[EUR][1000 genomes]
rs72906176	0.84[AFR][1000 genomes]
rs72910206	0.85[AFR][1000 genomes]
rs72910208	0.83[AFR][1000 genomes]
rs72910224	0.86[AFR][1000 genomes]
rs9631526	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9809330	0.83[AFR][1000 genomes]
rs9818387	0.91[YRI][hapmap];0.86[AFR][1000 genomes]
rs9822620	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9829918	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9832632	0.91[YRI][hapmap]
rs9835586	1.00[CEU][hapmap];0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs9836486	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9838831	0.96[YRI][hapmap];0.84[AFR][1000 genomes]
rs9839144	1.00[CEU][hapmap];0.82[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9839572	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9853126	0.88[YRI][hapmap]
rs9858080	0.84[AFR][1000 genomes]
rs9868575	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9870336	0.91[YRI][hapmap]
rs9871957	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9876637	1.00[CEU][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9880690	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv533681	chr3:78750924-79017336	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv834744	chr3:78911545-79076470	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78967200-79000600	Weak transcription	Fetal Kidney	kidney
2	chr3:78969600-79000600	Weak transcription	HepG2	liver
3	chr3:78982400-79001800	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr3:78988000-78993600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:78988000-79002400	Weak transcription	Aorta	Aorta
6	chr3:78992400-78994000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
7	chr3:78992800-78994400	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:78993000-78994200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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