Variant report

Variant	rs10089757
Chromosome Location	chr8:124924137-124924138
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:124915045..124918415-chr8:124921775..124925187,3	MCF-7	breast:
2	chr8:124843791..124846042-chr8:124921858..124924618,2	MCF-7	breast:
3	chr8:124923270..124925318-chr8:125461357..125464134,2	MCF-7	breast:
4	chr8:124918718..124920943-chr8:124922678..124925068,2	MCF-7	breast:
5	chr8:124908341..124910827-chr8:124923063..124925979,2	K562	blood:
6	chr8:124828216..124830191-chr8:124923748..124926066,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000183665	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10089499	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10103366	0.88[CHD][hapmap];0.81[JPT][hapmap]
rs10110548	0.88[CHD][hapmap];0.81[JPT][hapmap]
rs10956153	0.82[CEU][hapmap];0.88[CHD][hapmap];0.84[GIH][hapmap];0.81[JPT][hapmap];0.90[ASN][1000 genomes]
rs10956154	0.99[ASN][1000 genomes]
rs10956155	0.99[ASN][1000 genomes]
rs10956156	0.99[ASN][1000 genomes]
rs11779980	0.86[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.84[GIH][hapmap];0.91[JPT][hapmap];0.99[ASN][1000 genomes]
rs11782845	0.88[CHD][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs11787464	0.82[CEU][hapmap];0.86[ASN][1000 genomes]
rs12541526	0.90[ASN][1000 genomes]
rs12544278	0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12548182	0.82[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.84[GIH][hapmap];0.91[JPT][hapmap];0.99[ASN][1000 genomes]
rs12548510	0.91[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.91[JPT][hapmap];0.83[LWK][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs12550262	0.82[CEU][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs1816368	0.82[CEU][hapmap];0.81[JPT][hapmap]
rs28425543	0.99[ASN][1000 genomes]
rs28703921	0.82[ASN][1000 genomes]
rs61030560	0.90[ASN][1000 genomes]
rs6998986	0.88[CHD][hapmap];0.81[JPT][hapmap]
rs7823205	0.88[CHD][hapmap];0.81[JPT][hapmap]
rs7844410	1.00[CHB][hapmap];0.91[JPT][hapmap];0.99[ASN][1000 genomes]
rs9656949	0.88[CHD][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033617	chr8:124895516-125012783	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1035035	chr8:124895516-125020472	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv612141	chr8:124895809-125006490	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv612142	chr8:124896389-125006490	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10089757	FBXO32	cis	parietal	SCAN
rs10089757	LOC100131726	cis	cerebellum	SCAN
rs10089757	WDR67	cis	parietal	SCAN
rs10089757	MRPL13	cis	parietal	SCAN

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:124922800-124925200	Enhancers	Stomach Mucosa	stomach
2	chr8:124922800-124925800	Enhancers	Fetal Intestine Large	intestine
3	chr8:124923000-124927000	Enhancers	Rectal Mucosa Donor 31	rectum
4	chr8:124923200-124925000	Enhancers	Fetal Intestine Small	intestine
5	chr8:124923200-124925400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr8:124923600-124924200	Enhancers	Adipose Nuclei	Adipose
7	chr8:124923600-124924400	Enhancers	Fetal Muscle Leg	muscle
8	chr8:124923600-124924600	Active TSS	Rectal Mucosa Donor 29	rectum
9	chr8:124923600-124924800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr8:124923600-124925200	Enhancers	Duodenum Mucosa	Duodenum
11	chr8:124923600-124926800	Enhancers	HSMMtube	muscle
12	chr8:124923800-124924200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr8:124923800-124924400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr8:124923800-124924400	Enhancers	HSMM	muscle
15	chr8:124924000-124924200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr8:124924000-124924200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr8:124924000-124924400	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr8:124924000-124924400	Enhancers	Osteobl	bone
19	chr8:124924000-124925400	Enhancers	Colonic Mucosa	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links