Variant report

Variant	rs28706213
Chromosome Location	chr1:57790288-57790289
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1077424	0.80[ASN][1000 genomes]
rs1077425	0.80[ASN][1000 genomes]
rs10889034	0.96[ASN][1000 genomes]
rs10889036	0.80[ASN][1000 genomes]
rs11207007	0.89[ASN][1000 genomes]
rs11207010	0.86[ASN][1000 genomes]
rs11207011	0.83[ASN][1000 genomes]
rs11207012	0.80[ASN][1000 genomes]
rs11207014	0.80[ASN][1000 genomes]
rs11207015	0.80[ASN][1000 genomes]
rs1149630	0.83[ASN][1000 genomes]
rs11589921	0.88[ASN][1000 genomes]
rs11799925	0.82[ASN][1000 genomes]
rs12061812	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12085326	0.83[ASN][1000 genomes]
rs12087888	0.86[ASN][1000 genomes]
rs12128305	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12137583	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12139429	0.82[ASN][1000 genomes]
rs12142821	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1240439	0.86[ASN][1000 genomes]
rs1504594	0.80[ASN][1000 genomes]
rs166514	0.80[ASN][1000 genomes]
rs17456661	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2113454	0.82[ASN][1000 genomes]
rs2113456	0.80[ASN][1000 genomes]
rs267646	0.86[ASN][1000 genomes]
rs267647	0.89[ASN][1000 genomes]
rs267650	0.86[ASN][1000 genomes]
rs267651	0.84[ASN][1000 genomes]
rs374845	0.83[ASN][1000 genomes]
rs390203	0.86[ASN][1000 genomes]
rs439378	0.83[ASN][1000 genomes]
rs4912162	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4912163	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4912237	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55863020	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61769668	0.80[ASN][1000 genomes]
rs61769670	0.82[ASN][1000 genomes]
rs6587767	0.84[ASN][1000 genomes]
rs6668257	0.86[ASN][1000 genomes]
rs6687842	0.82[ASN][1000 genomes]
rs72674872	0.83[ASN][1000 genomes]
rs736109	0.83[ASN][1000 genomes]
rs736110	0.83[ASN][1000 genomes]
rs746937	0.83[ASN][1000 genomes]
rs7543805	0.80[ASN][1000 genomes]
rs924848	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs94216	0.83[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	nsv461628	chr1:57463326-57816489	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv546305	chr1:57463326-57816489	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv871943	chr1:57784144-57855876	Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57785200-57793800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr1:57785400-57790400	Weak transcription	Fetal Brain Female	brain
3	chr1:57787200-57793800	Weak transcription	Fetal Brain Male	brain
4	chr1:57789800-57790400	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr1:57789800-57792400	Enhancers	Fetal Intestine Small	intestine
6	chr1:57789800-57792600	Enhancers	Fetal Intestine Large	intestine
7	chr1:57790000-57790800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr1:57790000-57790800	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr1:57790200-57790400	Enhancers	Stomach Smooth Muscle	stomach
10	chr1:57790200-57790600	Enhancers	H1 Cell Line	embryonic stem cell
11	chr1:57790200-57790800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr1:57790200-57791000	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr1:57790200-57791200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr1:57790200-57792400	Enhancers	Duodenum Mucosa	Duodenum

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