Variant report

Variant	rs10899115
Chromosome Location	chr11:75471849-75471850
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:75451470..75453801-chr11:75470298..75473019,2	MCF-7	breast:
2	chr11:75272251..75275540-chr11:75471751..75475458,4	MCF-7	breast:
3	chr11:75468859..75471358-chr11:75471618..75474193,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000149257	Chromatin interaction
ENSG00000062282	Chromatin interaction
ENSG00000263993	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10160802	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10219339	0.83[AMR][1000 genomes]
rs10793124	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10793125	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10793126	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10793127	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10793128	0.87[EUR][1000 genomes]
rs10793129	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10793130	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10899109	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10899110	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10899112	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10899113	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10899114	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10899116	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10899118	0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10899121	0.84[AMR][1000 genomes]
rs10899122	0.84[AMR][1000 genomes]
rs10899123	0.80[AMR][1000 genomes]
rs11236514	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11236515	0.90[EUR][1000 genomes]
rs11236516	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11236517	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11236518	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11236519	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11236520	0.83[AMR][1000 genomes]
rs11236525	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236526	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236527	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11236528	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11236531	0.84[AMR][1000 genomes]
rs11236533	0.83[AMR][1000 genomes]
rs11821808	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1219549	0.81[ASN][1000 genomes]
rs1219550	0.81[ASN][1000 genomes]
rs12222542	0.80[AMR][1000 genomes]
rs1806895	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2008476	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2168947	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs28802056	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3060	0.94[ASN][1000 genomes]
rs498936	0.81[ASN][1000 genomes]
rs57188913	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58411334	0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs59913369	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72997616	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7944950	0.85[AMR][1000 genomes]
rs7947512	0.84[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3381903	chr11:75123498-75587233	Bivalent Enhancer Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases
2	nsv897924	chr11:75424546-75678647	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv897925	chr11:75456134-75556323	Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10899115	RP11-535A19.1	cis	Whole Blood	GTEx
rs10899115	DGAT2	cis	Whole Blood	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:75466200-75475800	Enhancers	Liver	Liver
2	chr11:75468600-75475400	Enhancers	HepG2	liver
3	chr11:75470200-75473000	Enhancers	HUVEC	blood vessel
4	chr11:75470200-75476200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr11:75470400-75473000	Weak transcription	Spleen	Spleen
6	chr11:75470600-75474000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr11:75471000-75472000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr11:75471000-75472000	Weak transcription	Stomach Mucosa	stomach
9	chr11:75471200-75474600	Enhancers	Fetal Intestine Large	intestine
10	chr11:75471600-75472600	Enhancers	Fetal Intestine Small	intestine
11	chr11:75471600-75473200	Enhancers	Monocytes-CD14+_RO01746	blood
12	chr11:75471600-75475600	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr11:75471800-75472400	Enhancers	GM12878-XiMat	blood
14	chr11:75471800-75472800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr11:75471800-75473200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr11:75471800-75473200	Enhancers	Primary neutrophils fromperipheralblood	blood
17	chr11:75471800-75473400	Enhancers	Osteobl	bone
18	chr11:75471800-75474800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr11:75471800-75475200	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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