Variant report

Variant	rs55672379
Chromosome Location	chr1:78642850-78642851
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs11799753	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11804237	0.93[ASN][1000 genomes]
rs11806671	0.80[ASN][1000 genomes]
rs11807462	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11807476	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11808942	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11809101	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12410030	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1335482	0.93[ASN][1000 genomes]
rs1407749	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17101469	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17101472	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17101475	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2208968	0.80[ASN][1000 genomes]
rs3811442	0.93[ASN][1000 genomes]
rs4650471	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4650481	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs530042	1.00[ASN][1000 genomes]
rs6682319	0.93[ASN][1000 genomes]
rs699010	1.00[ASN][1000 genomes]
rs72687184	1.00[ASN][1000 genomes]
rs72687185	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72687187	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72687190	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72687200	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72688718	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7516182	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7529494	0.80[ASN][1000 genomes]
rs7532039	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7532135	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7535444	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7537442	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7537720	0.80[ASN][1000 genomes]
rs7547287	0.80[ASN][1000 genomes]
rs7554427	0.80[ASN][1000 genomes]
rs942099	0.85[EUR][1000 genomes];1.00[ASN][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	nsv1013008	chr1:78463173-78958701	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS 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 miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv535012	chr1:78463173-78958701	Enhancers Genic enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
3	nsv871835	chr1:78528803-79501129	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	esv1850497	chr1:78596312-78645701	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1000388	chr1:78638946-78665285	Enhancers Weak transcription ZNF genes & repeats	TF binding region	1 gene(s)	inside rSNPs	diseases
6	nsv520237	chr1:78639244-78660123	Enhancers Weak transcription ZNF genes & repeats	TF binding region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:78625200-78644400	Weak transcription	Pancreas	Pancrea
2	chr1:78635000-78646200	Weak transcription	Fetal Intestine Small	intestine
3	chr1:78641600-78643400	Enhancers	Fetal Muscle Leg	muscle
4	chr1:78641600-78643800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr1:78641800-78643200	Enhancers	Osteobl	bone
6	chr1:78641800-78643800	Enhancers	NHDF-Ad	bronchial
7	chr1:78641800-78645200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr1:78642000-78643200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr1:78642000-78643400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr1:78642000-78643800	Enhancers	Rectal Mucosa Donor 31	rectum

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