Variant report

Variant	rs10946752
Chromosome Location	chr6:25164915-25164916
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	chr6:25111673..25113955-chr6:25164740..25166276,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11752102	0.88[ASN][1000 genomes]
rs12663706	0.96[ASN][1000 genomes]
rs16890179	0.82[ASN][1000 genomes]
rs1900554	0.88[ASN][1000 genomes]
rs4712889	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6909903	0.87[ASN][1000 genomes]
rs6915489	0.87[ASN][1000 genomes]
rs6922783	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6941417	0.88[ASN][1000 genomes]
rs7740185	0.86[ASN][1000 genomes]
rs7748381	0.87[ASN][1000 genomes]
rs9348664	0.87[ASN][1000 genomes]
rs9356963	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9356964	0.97[ASN][1000 genomes]
rs9366606	0.87[ASN][1000 genomes]
rs9379723	0.84[ASN][1000 genomes]
rs9379726	0.87[ASN][1000 genomes]
rs9393620	0.97[ASN][1000 genomes]
rs9393621	0.99[ASN][1000 genomes]
rs9467430	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023989	chr6:24930362-25285679	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv830611	chr6:25039374-25199112	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv462662	chr6:25084718-25165486	Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv601166	chr6:25084718-25165486	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1025694	chr6:25136860-25309450	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
6	nsv1020774	chr6:25154152-25285679	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	nsv538161	chr6:25154152-25285679	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
8	nsv462663	chr6:25156197-25234884	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv601167	chr6:25156197-25234884	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10946752	CMAHP	cis	Artery Tibial	GTEx
rs10946752	CMAH	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25159600-25168800	Weak transcription	Placenta	Placenta
2	chr6:25164600-25165000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr6:25164600-25165000	Enhancers	Liver	Liver
4	chr6:25164600-25165000	Flanking Active TSS	Fetal Thymus	thymus
5	chr6:25164600-25165200	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
6	chr6:25164600-25166000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr6:25164600-25166000	Active TSS	Rectal Mucosa Donor 31	rectum
8	chr6:25164600-25166600	Active TSS	Lung	lung
9	chr6:25164600-25167000	Active TSS	Rectal Mucosa Donor 29	rectum
10	chr6:25164600-25167200	Active TSS	Thymus	Thymus
11	chr6:25164800-25165000	Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr6:25164800-25165000	Active TSS	Dnd41	blood
13	chr6:25164800-25165200	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
14	chr6:25164800-25165600	Enhancers	Primary hematopoietic stem cells	blood
15	chr6:25164800-25173800	Weak transcription	Colon Smooth Muscle	Colon

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