Variant report

Variant	rs1478110
Chromosome Location	chr9:1721478-1721479
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:1721060..1723569-chr9:1724371..1726152,2	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10120765	0.86[ASN][1000 genomes]
rs10810747	0.87[ASN][1000 genomes]
rs10962874	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10962913	0.84[ASN][1000 genomes]
rs10962915	0.84[ASN][1000 genomes]
rs1932855	0.86[ASN][1000 genomes]
rs1932856	0.86[ASN][1000 genomes]
rs2077416	0.86[ASN][1000 genomes]
rs2447675	0.84[EUR][1000 genomes]
rs2616830	0.87[EUR][1000 genomes]
rs2616832	0.80[EUR][1000 genomes]
rs2616833	0.84[EUR][1000 genomes]
rs2783990	0.84[EUR][1000 genomes]
rs2783991	0.84[EUR][1000 genomes]
rs2783992	0.87[EUR][1000 genomes]
rs2785738	0.84[EUR][1000 genomes]
rs28478918	0.86[ASN][1000 genomes]
rs28655642	0.86[ASN][1000 genomes]
rs3845186	0.86[ASN][1000 genomes]
rs4302893	0.80[ASN][1000 genomes]
rs4304369	0.81[ASN][1000 genomes]
rs4304370	0.81[ASN][1000 genomes]
rs4410953	0.80[ASN][1000 genomes]
rs4740640	0.86[ASN][1000 genomes]
rs4741587	0.86[ASN][1000 genomes]
rs4741588	0.86[ASN][1000 genomes]
rs6475119	0.84[ASN][1000 genomes]
rs6475130	0.86[ASN][1000 genomes]
rs6475131	0.86[ASN][1000 genomes]
rs6475132	0.86[ASN][1000 genomes]
rs6475133	0.85[ASN][1000 genomes]
rs7019705	0.87[ASN][1000 genomes]
rs7030295	0.88[ASN][1000 genomes]
rs7031972	0.84[ASN][1000 genomes]
rs7857859	0.86[ASN][1000 genomes]
rs7873912	0.86[ASN][1000 genomes]
rs869627	0.84[ASN][1000 genomes]
rs9695708	0.86[ASN][1000 genomes]
rs9696140	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752273	chr9:1062218-1824888	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1026043	chr9:1079462-1732502	Active TSS Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv539909	chr9:1079462-1732502	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1016148	chr9:1457605-2361750	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv539916	chr9:1457605-2361750	Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv892035	chr9:1556054-1823605	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv1016764	chr9:1564704-1736070	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv1021954	chr9:1591579-1722416	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	nsv1021712	chr9:1647840-2216839	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
10	nsv539921	chr9:1647840-2216839	Bivalent Enhancer Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
11	nsv892040	chr9:1672167-1759486	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv892041	chr9:1690810-1759486	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv613076	chr9:1699307-1747566	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
14	nsv1018906	chr9:1702711-1743631	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
15	nsv539922	chr9:1702711-1743631	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
16	nsv892042	chr9:1721385-1762597	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Educational attainment	25201988	GWAS catalog

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:1718000-1736800	Weak transcription	Adipose Nuclei	Adipose
2	chr9:1721400-1722400	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr9:1721400-1722600	Enhancers	H1 Cell Line	embryonic stem cell

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