Variant report

Variant	rs6779461
Chromosome Location	chr3:160509168-160509169
allele	A/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:51)

rs_ID	r²[population]
rs1159747	1.00[CEU][hapmap]
rs1378662	1.00[CEU][hapmap]
rs1378663	1.00[CEU][hapmap]
rs1455870	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs1455871	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs16831442	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16831457	1.00[CEU][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16831471	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16831473	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16831475	0.84[AFR][1000 genomes]
rs16831478	0.84[AFR][1000 genomes]
rs16831516	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs16831520	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs17236620	0.94[EUR][1000 genomes]
rs17236641	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17236648	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17236655	1.00[EUR][1000 genomes]
rs17236662	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs17826352	0.94[EUR][1000 genomes]
rs17826358	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs17826364	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17826370	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17826376	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2068817	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs34035435	0.97[EUR][1000 genomes]
rs3907061	0.94[EUR][1000 genomes]
rs4549318	0.97[EUR][1000 genomes]
rs4627794	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs55891037	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55905728	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55923270	0.94[EUR][1000 genomes]
rs55997050	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56083575	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56141155	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56157815	1.00[EUR][1000 genomes]
rs56180903	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56331465	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57828617	0.94[EUR][1000 genomes]
rs58891820	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61459435	0.83[AFR][1000 genomes]
rs6768524	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs6771910	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs73877952	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73877964	0.82[AFR][1000 genomes]
rs73877966	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7618082	1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7618596	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7629154	1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7633282	0.84[AFR][1000 genomes]
rs7633401	1.00[CEU][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9837945	0.87[CEU][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	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1009249	chr3:160496237-160627378	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv536780	chr3:160496237-160627378	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160498400-160522600	Weak transcription	Right Ventricle	heart
2	chr3:160503600-160514600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr3:160504400-160511600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr3:160508200-160509600	Enhancers	Stomach Smooth Muscle	stomach
5	chr3:160508200-160509800	Enhancers	Skeletal Muscle Female	skeletal muscle
6	chr3:160508400-160509600	Enhancers	Colon Smooth Muscle	Colon
7	chr3:160508600-160512600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:160508600-160512600	Weak transcription	Psoas Muscle	Psoas
9	chr3:160508600-160513600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr3:160509000-160509400	Enhancers	Duodenum Smooth Muscle	Duodenum
11	chr3:160509000-160509800	Enhancers	Pancreatic Islets	Pancreatic Islet
12	chr3:160509000-160510400	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr3:160509000-160513000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr3:160509000-160513200	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr3:160509000-160514000	Weak transcription	Adipose Nuclei	Adipose
16	chr3:160509000-160522600	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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