Variant report

Variant	rs73709667
Chromosome Location	chr8:120227688-120227689
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:120219693..120225456-chr8:120227472..120242098,24	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TNFRSF11B-2	chr8:120227412-120227867	ENSG00000253972
2	lnc-TNFRSF11B-2	chr8:120227351-120227799	ENSG00000253972

Variant related genes	Relation type
ENSG00000147676	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10505354	0.81[ASN][1000 genomes]
rs11990379	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11994152	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11997485	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1364713	0.81[ASN][1000 genomes]
rs1425068	0.95[ASN][1000 genomes]
rs16892237	1.00[ASN][1000 genomes]
rs2303398	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3739419	0.81[ASN][1000 genomes]
rs3812491	1.00[ASN][1000 genomes]
rs41319147	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs55636028	0.91[ASN][1000 genomes]
rs55714432	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56354938	1.00[ASN][1000 genomes]
rs56398539	0.91[ASN][1000 genomes]
rs56840596	0.91[ASN][1000 genomes]
rs59699923	0.80[ASN][1000 genomes]
rs60738905	0.85[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs60879825	0.91[ASN][1000 genomes]
rs73709668	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73709669	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73709670	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73709671	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73709673	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73709674	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73709675	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73709676	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73709677	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73709680	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73709681	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73709684	0.81[ASN][1000 genomes]
rs73709685	0.81[ASN][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	nsv868916	chr8:119911943-120762250	Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	esv2758169	chr8:119943309-120275750	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	esv2759639	chr8:119943309-120275750	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:120222200-120241200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr8:120222200-120241400	Weak transcription	Rectal Smooth Muscle	rectum
3	chr8:120222400-120230400	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr8:120222400-120234600	Weak transcription	HMEC	breast
5	chr8:120222400-120240200	Weak transcription	Fetal Stomach	stomach
6	chr8:120222600-120236800	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr8:120222800-120228600	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr8:120223000-120238800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr8:120223000-120239800	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr8:120223400-120229200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr8:120223400-120233600	Weak transcription	Fetal Intestine Large	intestine
12	chr8:120223600-120234000	Enhancers	Liver	Liver
13	chr8:120223800-120262400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr8:120225200-120228200	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr8:120225200-120240000	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr8:120225400-120230000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr8:120225400-120231400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr8:120225600-120229600	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr8:120225600-120229600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr8:120225600-120252400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr8:120226200-120228200	Enhancers	Gastric	stomach
22	chr8:120226800-120231800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr8:120227200-120228000	Enhancers	Lung	lung
24	chr8:120227400-120227800	Bivalent Enhancer	Brain Cingulate Gyrus	brain
25	chr8:120227400-120227800	Genic enhancers	HepG2	liver
26	chr8:120227400-120228000	Strong transcription	Fetal Intestine Small	intestine
27	chr8:120227400-120228200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr8:120227400-120228200	Genic enhancers	Pancreas	Pancrea
29	chr8:120227400-120228200	Enhancers	Stomach Mucosa	stomach
30	chr8:120227400-120228200	Genic enhancers	Hela-S3	cervix
31	chr8:120227400-120228200	Strong transcription	NHEK	skin
32	chr8:120227600-120227800	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr8:120227600-120228200	Enhancers	H1 Cell Line	embryonic stem cell
34	chr8:120227600-120228200	Genic enhancers	Esophagus	oesophagus
35	chr8:120227600-120228400	Enhancers	Duodenum Mucosa	Duodenum
36	chr8:120227600-120230800	Enhancers	Adipose Nuclei	Adipose

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