Variant report

Variant	rs55841807
Chromosome Location	chr9:79063666-79063667
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:79057975..79060162-chr9:79063071..79066178,3	MCF-7	breast:
2	chr9:79062570..79065209-chr9:79073838..79075635,2	MCF-7	breast:
3	chr9:79061368..79063776-chr9:79272393..79274903,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000187210	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10114296	1.00[AMR][1000 genomes]
rs10116860	1.00[AMR][1000 genomes]
rs10124464	1.00[AMR][1000 genomes]
rs10125804	1.00[AMR][1000 genomes]
rs11144872	1.00[AMR][1000 genomes]
rs11144874	1.00[AMR][1000 genomes]
rs11144885	1.00[AMR][1000 genomes]
rs11144886	1.00[AMR][1000 genomes]
rs12000283	1.00[AMR][1000 genomes]
rs12003653	1.00[AMR][1000 genomes]
rs12338735	1.00[AMR][1000 genomes]
rs12345290	1.00[AMR][1000 genomes]
rs12346177	1.00[AMR][1000 genomes]
rs12346217	1.00[AMR][1000 genomes]
rs12346978	1.00[AMR][1000 genomes]
rs12349438	1.00[AMR][1000 genomes]
rs28391132	1.00[AMR][1000 genomes]
rs28435584	1.00[AMR][1000 genomes]
rs28477196	1.00[AMR][1000 genomes]
rs28591137	1.00[AMR][1000 genomes]
rs28704710	1.00[AMR][1000 genomes]
rs28837371	1.00[AMR][1000 genomes]
rs55843495	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55868826	1.00[AMR][1000 genomes]
rs57699869	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61328249	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7018821	1.00[AMR][1000 genomes]
rs7022424	1.00[AMR][1000 genomes]
rs7022806	1.00[AMR][1000 genomes]
rs7022930	1.00[AMR][1000 genomes]
rs7026641	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7030639	1.00[AMR][1000 genomes]
rs7031173	1.00[AMR][1000 genomes]
rs7032475	1.00[AMR][1000 genomes]
rs7039907	1.00[AMR][1000 genomes]
rs7042938	1.00[AMR][1000 genomes]
rs7045064	1.00[AMR][1000 genomes]
rs73650203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73650204	1.00[AMR][1000 genomes]
rs73650205	1.00[AMR][1000 genomes]
rs73650206	1.00[AMR][1000 genomes]
rs73650208	1.00[AMR][1000 genomes]
rs73650209	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73650210	1.00[AMR][1000 genomes]
rs73650211	1.00[AMR][1000 genomes]
rs73650212	1.00[AMR][1000 genomes]
rs73650217	1.00[AMR][1000 genomes]
rs73650218	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73650220	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73652926	1.00[AMR][1000 genomes]
rs73652927	1.00[AMR][1000 genomes]
rs73652929	0.83[AFR][1000 genomes]
rs73652930	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73652940	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73652941	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73652942	1.00[AMR][1000 genomes]
rs73652943	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73652944	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73652945	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7863426	1.00[AMR][1000 genomes]
rs7867442	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893478	chr9:78933874-79101006	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv893479	chr9:78971253-79275226	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv520423	chr9:79047117-79065299	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79062200-79064200	Enhancers	Fetal Brain Male	brain
2	chr9:79062600-79065800	Weak transcription	A549	lung
3	chr9:79062800-79065800	Weak transcription	NH-A	brain
4	chr9:79063000-79064400	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr9:79063000-79065000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr9:79063000-79065200	Weak transcription	HSMM	muscle
7	chr9:79063000-79065200	Weak transcription	NHDF-Ad	bronchial
8	chr9:79063000-79065200	Weak transcription	NHLF	lung
9	chr9:79063000-79065400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr9:79063000-79065400	Weak transcription	Osteobl	bone
11	chr9:79063000-79065600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr9:79063000-79065800	Weak transcription	HSMMtube	muscle
13	chr9:79063000-79067400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr9:79063000-79068000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr9:79063000-79070800	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr9:79063200-79066200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr9:79063400-79063800	Enhancers	Fetal Brain Female	brain
18	chr9:79063400-79068000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr9:79063600-79067800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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