Variant report

Variant	rs59913369
Chromosome Location	chr11:75473265-75473266
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:75272251..75275540-chr11:75471751..75475458,4	MCF-7	breast:
2	chr11:75468859..75471358-chr11:75471618..75474193,2	MCF-7	breast:
3	chr11:75472568..75475563-chr11:75501767..75503398,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MAP6-2	chr11:75473180-75473589	ENSG00000247867
2	lnc-MAP6-2	chr11:75473180-75473589	XLOC_009505

Variant related genes	Relation type
ENSG00000062282	Chromatin interaction
ENSG00000149257	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	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10793124	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10793125	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10793126	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10793127	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10793128	0.87[EUR][1000 genomes]
rs10793129	0.87[EUR][1000 genomes]
rs10793130	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10899109	0.90[EUR][1000 genomes]
rs10899110	0.90[EUR][1000 genomes]
rs10899112	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10899113	0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10899114	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10899115	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10899116	0.94[EUR][1000 genomes]
rs10899118	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10899121	0.92[AMR][1000 genomes]
rs10899122	0.92[AMR][1000 genomes]
rs10899123	0.88[AMR][1000 genomes]
rs10899127	0.81[AMR][1000 genomes]
rs10899128	0.81[AMR][1000 genomes]
rs11236514	0.90[EUR][1000 genomes]
rs11236515	0.90[EUR][1000 genomes]
rs11236516	0.90[EUR][1000 genomes]
rs11236517	0.90[EUR][1000 genomes]
rs11236518	0.90[EUR][1000 genomes]
rs11236519	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11236525	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236526	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11236527	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11236528	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11236531	0.92[AMR][1000 genomes]
rs11821808	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1219549	0.81[ASN][1000 genomes]
rs1219550	0.81[ASN][1000 genomes]
rs12222542	0.88[AMR][1000 genomes]
rs1806895	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2008476	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2168947	0.92[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs28802056	0.93[EUR][1000 genomes]
rs3060	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs498936	0.81[ASN][1000 genomes]
rs57188913	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58340821	0.84[AMR][1000 genomes]
rs58411334	0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7118293	0.81[AMR][1000 genomes]
rs72997616	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7947512	0.92[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
rs59913369	RP11-535A19.1	cis	Whole Blood	GTEx
rs59913369	DGAT2	cis	Whole Blood	GTEx

Chromatin state (count:23 , 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	chr11:75470200-75476200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr11:75470600-75474000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr11:75471200-75474600	Enhancers	Fetal Intestine Large	intestine
6	chr11:75471600-75475600	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr11:75471800-75473400	Enhancers	Osteobl	bone
8	chr11:75471800-75474800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr11:75471800-75475200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr11:75472000-75474600	Enhancers	Primary B cells from cord blood	blood
11	chr11:75472000-75474600	Enhancers	NHDF-Ad	bronchial
12	chr11:75472000-75476600	Enhancers	Adipose Nuclei	Adipose
13	chr11:75472400-75477000	Weak transcription	GM12878-XiMat	blood
14	chr11:75472600-75473800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr11:75472600-75478600	Weak transcription	Fetal Intestine Small	intestine
16	chr11:75472800-75473800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr11:75472800-75475000	Weak transcription	HMEC	breast
18	chr11:75473000-75473400	Enhancers	Spleen	Spleen
19	chr11:75473200-75473400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr11:75473200-75473400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
21	chr11:75473200-75473400	Enhancers	Lung	lung
22	chr11:75473200-75473400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
23	chr11:75473200-75473600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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