Variant report

Variant	rs62564442
Chromosome Location	chr9:79057103-79057104
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:79056464..79059191-chr9:79073425..79075482,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000187210	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10116800	0.90[ASN][1000 genomes]
rs10118954	0.90[ASN][1000 genomes]
rs10119732	0.95[ASN][1000 genomes]
rs10125012	0.90[ASN][1000 genomes]
rs10125667	0.90[ASN][1000 genomes]
rs10781358	0.90[ASN][1000 genomes]
rs10781359	0.95[ASN][1000 genomes]
rs10781360	0.90[ASN][1000 genomes]
rs10869770	0.90[ASN][1000 genomes]
rs10869774	0.85[ASN][1000 genomes]
rs11144870	0.90[ASN][1000 genomes]
rs11144875	0.90[ASN][1000 genomes]
rs11144878	0.90[ASN][1000 genomes]
rs11144881	0.90[ASN][1000 genomes]
rs11144887	0.90[ASN][1000 genomes]
rs11144894	0.85[ASN][1000 genomes]
rs11144897	0.95[ASN][1000 genomes]
rs11144905	0.90[EUR][1000 genomes]
rs1129399	0.90[ASN][1000 genomes]
rs11791951	0.90[ASN][1000 genomes]
rs11793613	0.90[ASN][1000 genomes]
rs11794019	0.90[ASN][1000 genomes]
rs12156473	0.90[ASN][1000 genomes]
rs12351617	0.88[EUR][1000 genomes]
rs12377856	0.90[ASN][1000 genomes]
rs12377878	0.90[ASN][1000 genomes]
rs12378822	0.88[EUR][1000 genomes]
rs12380332	0.90[EUR][1000 genomes]
rs12380522	0.80[ASN][1000 genomes]
rs1324212	0.90[EUR][1000 genomes]
rs1324213	0.90[ASN][1000 genomes]
rs1951910	0.90[ASN][1000 genomes]
rs3187236	0.80[ASN][1000 genomes]
rs4571791	0.90[ASN][1000 genomes]
rs55740812	0.85[ASN][1000 genomes]
rs57429014	0.90[EUR][1000 genomes]
rs57480680	0.90[ASN][1000 genomes]
rs58136435	0.95[ASN][1000 genomes]
rs58651349	0.88[EUR][1000 genomes]
rs59322809	0.87[EUR][1000 genomes]
rs59424752	0.80[ASN][1000 genomes]
rs62564441	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62564444	0.90[EUR][1000 genomes]
rs62567918	0.85[ASN][1000 genomes]
rs62568690	0.90[ASN][1000 genomes]
rs62568692	0.90[ASN][1000 genomes]
rs6560516	0.90[ASN][1000 genomes]
rs6560524	0.87[EUR][1000 genomes]
rs7023191	0.80[ASN][1000 genomes]
rs7025942	0.90[ASN][1000 genomes]
rs7026067	0.90[ASN][1000 genomes]
rs7029439	0.90[ASN][1000 genomes]
rs7035385	0.90[ASN][1000 genomes]
rs7037345	0.80[ASN][1000 genomes]
rs7038009	0.90[ASN][1000 genomes]
rs7038056	0.80[ASN][1000 genomes]
rs7040138	0.90[ASN][1000 genomes]
rs7041690	0.90[ASN][1000 genomes]
rs7047489	0.90[ASN][1000 genomes]
rs7049245	0.90[ASN][1000 genomes]
rs7851616	0.90[ASN][1000 genomes]
rs7852884	0.90[ASN][1000 genomes]
rs7853410	0.90[ASN][1000 genomes]
rs7854540	0.85[EUR][1000 genomes]
rs7859327	0.90[ASN][1000 genomes]
rs7875575	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893478	chr9:78933874-79101006	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv893479	chr9:78971253-79275226	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv520423	chr9:79047117-79065299	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79053600-79057800	Weak transcription	Fetal Intestine Small	intestine
2	chr9:79055400-79057400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr9:79055400-79057400	Enhancers	Muscle Satellite Cultured Cells	--
4	chr9:79056400-79057200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
5	chr9:79056400-79057200	Enhancers	Hela-S3	cervix
6	chr9:79056400-79057400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr9:79056400-79057400	Enhancers	HUVEC	blood vessel
8	chr9:79056600-79057200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr9:79056600-79057200	Enhancers	HepG2	liver
10	chr9:79056600-79057400	Flanking Active TSS	GM12878-XiMat	blood
11	chr9:79056800-79057200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr9:79056800-79057200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
13	chr9:79057000-79057200	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
14	chr9:79057000-79057200	Flanking Active TSS	Osteobl	bone
15	chr9:79057000-79057400	Enhancers	NH-A	brain

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