Variant report

Variant	rs11098609
Chromosome Location	chr4:80179372-80179373
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr4:80179371-80179387	MCF-7	breast:	n/a	n/a

Variant related genes	Relation type
LINC01088	TF binding region

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1080690	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11098588	0.81[ASN][1000 genomes]
rs11098595	0.83[ASN][1000 genomes]
rs11735553	0.83[ASN][1000 genomes]
rs12504676	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12643994	0.81[ASN][1000 genomes]
rs12644018	0.81[AMR][1000 genomes]
rs12648205	0.83[ASN][1000 genomes]
rs13145326	0.83[ASN][1000 genomes]
rs1385055	0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs17003689	0.95[ASN][1000 genomes]
rs17003690	0.95[ASN][1000 genomes]
rs1955232	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28528138	0.86[AMR][1000 genomes]
rs4246718	0.88[ASW][hapmap];0.81[CHB][hapmap];0.85[LWK][hapmap];0.80[TSI][hapmap];0.96[YRI][hapmap];0.83[ASN][1000 genomes]
rs4302482	1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[ASN][1000 genomes]
rs4386626	0.83[ASN][1000 genomes]
rs4425403	0.83[ASN][1000 genomes]
rs4470657	0.83[ASN][1000 genomes]
rs4502706	0.83[ASN][1000 genomes]
rs4519821	0.83[ASN][1000 genomes]
rs4530664	0.81[CHB][hapmap];0.89[JPT][hapmap]
rs4535355	0.83[ASN][1000 genomes]
rs4535356	0.81[ASN][1000 genomes]
rs4571359	0.83[ASN][1000 genomes]
rs4571360	0.83[ASN][1000 genomes]
rs4975079	0.83[ASN][1000 genomes]
rs4975080	0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4975166	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs4975171	0.83[ASN][1000 genomes]
rs4975172	0.83[ASN][1000 genomes]
rs4988619	0.83[ASN][1000 genomes]
rs56008448	0.93[ASN][1000 genomes]
rs56205707	0.87[ASN][1000 genomes]
rs6534217	0.83[ASN][1000 genomes]
rs6534218	0.83[ASN][1000 genomes]
rs6810580	0.83[ASN][1000 genomes]
rs6826553	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6826564	0.83[ASN][1000 genomes]
rs6827253	0.81[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6837864	0.83[ASN][1000 genomes]
rs6853034	0.83[ASN][1000 genomes]
rs6855921	0.83[ASN][1000 genomes]
rs72870807	0.87[ASN][1000 genomes]
rs72870815	0.87[ASN][1000 genomes]
rs72870819	0.87[ASN][1000 genomes]
rs7656444	0.81[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7659766	0.81[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.83[ASN][1000 genomes]
rs7673022	0.83[ASN][1000 genomes]
rs7676343	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs7679438	0.83[ASN][1000 genomes]
rs7681755	0.96[AFR][1000 genomes]
rs7695330	0.83[ASN][1000 genomes]
rs9307489	0.83[ASN][1000 genomes]
rs9715410	0.83[ASN][1000 genomes]
rs9993157	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1000907	chr4:79838948-80224764	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv879505	chr4:79887043-80293046	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:80165400-80194000	Weak transcription	Aorta	Aorta
2	chr4:80177200-80179400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr4:80177400-80180000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr4:80179000-80180400	Enhancers	Fetal Heart	heart
5	chr4:80179200-80180800	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr4:80179200-80180800	Enhancers	Right Ventricle	heart

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