Variant report

Variant	rs7027559
Chromosome Location	chr9:108520343-108520344
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr9:108520330-108520496	MCF-7	breast:	n/a	n/a

Variant related genes	Relation type
ENSG00000232486	TF binding region

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs41297177	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs55982456	0.94[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs58056859	0.86[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs59050784	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs59598160	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6477458	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7026243	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7026348	0.94[EUR][1000 genomes]
rs73520072	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73522009	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73522017	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73522042	0.91[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs7867014	0.91[AFR][1000 genomes];0.94[EUR][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	nsv893693	chr9:108427062-108683134	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv615116	chr9:108468129-108546438	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv893694	chr9:108486533-108854018	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108498400-108520400	Weak transcription	Psoas Muscle	Psoas
2	chr9:108513800-108521400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr9:108514000-108520400	Weak transcription	Right Ventricle	heart
4	chr9:108514000-108540000	Weak transcription	HSMMtube	muscle
5	chr9:108514200-108520400	Weak transcription	Gastric	stomach
6	chr9:108514200-108520400	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr9:108514800-108520400	Weak transcription	Lung	lung
8	chr9:108514800-108520400	Weak transcription	Pancreas	Pancrea
9	chr9:108514800-108520600	Weak transcription	Fetal Stomach	stomach
10	chr9:108514800-108521400	Weak transcription	Spleen	Spleen
11	chr9:108515200-108520400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr9:108515200-108521000	Weak transcription	Dnd41	blood
13	chr9:108515200-108522800	Weak transcription	Left Ventricle	heart
14	chr9:108515200-108545000	Weak transcription	K562	blood
15	chr9:108515200-108560600	Weak transcription	Ovary	ovary
16	chr9:108515400-108523400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr9:108515400-108536800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr9:108515600-108522400	Weak transcription	Liver	Liver
19	chr9:108515600-108538600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr9:108517200-108522000	Weak transcription	Primary B cells from peripheral blood	blood
21	chr9:108517800-108538400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr9:108518600-108520800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr9:108519200-108520800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr9:108519200-108521000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
25	chr9:108519800-108520400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr9:108520000-108520400	Enhancers	Fetal Heart	heart
27	chr9:108520000-108520600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
28	chr9:108520000-108520600	Genic enhancers	Skeletal Muscle Female	skeletal muscle
29	chr9:108520200-108520400	Enhancers	Right Atrium	heart
30	chr9:108520200-108520600	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr9:108520200-108520600	ZNF genes & repeats	Fetal Intestine Small	intestine
32	chr9:108520200-108520600	Enhancers	Skeletal Muscle Male	skeletal muscle
33	chr9:108520200-108520600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
34	chr9:108520200-108520800	ZNF genes & repeats	Aorta	Aorta
35	chr9:108520200-108521000	Strong transcription	Primary B cells from cord blood	blood

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