Variant report

Variant	rs9844720
Chromosome Location	chr3:85719890-85719891
allele	C/T
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:50)

rs_ID	r²[population]
rs10511074	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs11127905	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11711972	0.89[JPT][hapmap]
rs12494196	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1375218	0.81[JPT][hapmap]
rs17334733	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1947180	1.00[CEU][hapmap];0.89[JPT][hapmap];0.94[EUR][1000 genomes]
rs2017676	0.94[EUR][1000 genomes]
rs2029051	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2029052	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2029053	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2044654	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2325036	0.89[JPT][hapmap]
rs2325037	0.89[JPT][hapmap]
rs4129298	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4298053	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4302392	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4305433	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs4312666	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4320069	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4435654	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap]
rs4482674	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4555536	0.89[JPT][hapmap]
rs4618235	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6549047	0.95[CEU][hapmap]
rs6549048	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6549054	0.89[JPT][hapmap]
rs6781999	1.00[CEU][hapmap];0.89[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6799453	0.89[JPT][hapmap]
rs73142855	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73147238	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73147239	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73147242	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7611409	0.89[JPT][hapmap]
rs7612371	0.90[JPT][hapmap]
rs7615964	0.85[CEU][hapmap];1.00[CHB][hapmap]
rs7624423	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7637221	0.81[JPT][hapmap]
rs7638774	0.90[JPT][hapmap]
rs7653470	0.90[JPT][hapmap]
rs9681744	0.89[JPT][hapmap]
rs9820133	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9820262	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9836755	0.89[JPT][hapmap]
rs9843797	0.89[JPT][hapmap]
rs9860249	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap]
rs9864042	0.89[JPT][hapmap]
rs9876664	0.89[JPT][hapmap]
rs9878917	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9881886	0.89[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv590905	chr3:85438564-85797093	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv1010541	chr3:85505839-85870597	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv536625	chr3:85505839-85870597	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv877104	chr3:85646426-85737646	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85718400-85720800	Enhancers	Brain Substantia Nigra	brain
2	chr3:85718600-85720000	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:85719600-85720000	Enhancers	Brain Angular Gyrus	brain
4	chr3:85719600-85720000	Enhancers	Brain Inferior Temporal Lobe	brain
5	chr3:85719600-85720200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:85719600-85720200	Enhancers	HSMMtube	muscle
7	chr3:85719600-85720400	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr3:85719600-85720400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr3:85719600-85721000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr3:85719800-85720200	Enhancers	H1 Cell Line	embryonic stem cell
11	chr3:85719800-85720200	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr3:85719800-85720200	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr3:85719800-85720200	Enhancers	NH-A	brain
14	chr3:85719800-85720400	Enhancers	HSMM	muscle
15	chr3:85719800-85720600	Enhancers	Muscle Satellite Cultured Cells	--
16	chr3:85719800-85721000	Enhancers	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links