Variant report

Variant	rs61372781
Chromosome Location	chr9:86548379-86548380
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	chr9:86534561..86538761-chr9:86547777..86551990,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165115	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs57364890	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57371575	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57996505	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58090060	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59038995	1.00[AMR][1000 genomes]
rs59227663	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59962995	1.00[AMR][1000 genomes]
rs60035746	1.00[AMR][1000 genomes]
rs60639174	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60889426	1.00[AMR][1000 genomes]
rs61708723	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6559755	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6559759	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7035469	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7038536	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469353	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469354	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469361	1.00[AMR][1000 genomes]
rs73469367	1.00[AMR][1000 genomes]
rs73469373	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469375	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73469382	1.00[AMR][1000 genomes]
rs73469388	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471355	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471356	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471359	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471374	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471377	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471381	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471387	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471388	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73471390	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73473366	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73473369	1.00[AMR][1000 genomes]
rs73473370	1.00[ASN][1000 genomes]
rs73473371	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7856484	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7872631	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7875551	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469859	chr9:86398152-86587957	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv482641	chr9:86398152-86587957	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	esv2758192	chr9:86414024-86603602	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
4	esv2759701	chr9:86414024-86603602	Enhancers Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
5	nsv8541	chr9:86469723-86593758	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
6	nsv831644	chr9:86534310-86704395	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
7	esv3366490	chr9:86541369-86608868	Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
8	nsv1043703	chr9:86545917-86603545	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:86536600-86571000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:86537000-86553600	Weak transcription	Fetal Intestine Small	intestine
3	chr9:86537000-86553600	Weak transcription	Thymus	Thymus
4	chr9:86543000-86571000	Weak transcription	Esophagus	oesophagus
5	chr9:86544000-86552400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr9:86545400-86550400	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr9:86546000-86548600	Enhancers	Monocytes-CD14+_RO01746	blood
8	chr9:86546400-86550400	Enhancers	Placenta	Placenta
9	chr9:86546600-86548600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr9:86546800-86553400	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr9:86546800-86553600	Weak transcription	Fetal Thymus	thymus
12	chr9:86547000-86548600	Enhancers	Primary neutrophils fromperipheralblood	blood
13	chr9:86547200-86548600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr9:86547200-86548600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr9:86547200-86548600	Weak transcription	HMEC	breast
16	chr9:86547200-86549000	Weak transcription	Primary hematopoietic stem cells	blood
17	chr9:86547200-86553600	Weak transcription	Primary T cells from cord blood	blood
18	chr9:86547200-86553800	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr9:86547200-86570200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr9:86547400-86548600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr9:86547400-86548600	Weak transcription	NHEK	skin
22	chr9:86547400-86549000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr9:86547800-86549000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr9:86547800-86554200	Weak transcription	Dnd41	blood
25	chr9:86548000-86548400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr9:86548000-86548400	Weak transcription	Hela-S3	cervix
27	chr9:86548000-86549400	Enhancers	Primary B cells from cord blood	blood
28	chr9:86548000-86550400	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr9:86548000-86567000	Weak transcription	GM12878-XiMat	blood

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