Variant report

Variant	rs73528478
Chromosome Location	chr9:97874401-97874402
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	chr9:97874379-97874478	A549	lung:	n/a	n/a
2	POLR2A	chr9:97873561-97875494	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr9:97874328-97875141	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr9:97870812..97875678-chr9:97877049..97880671,6	MCF-7	breast:
2	chr9:97867131..97870318-chr9:97872764..97875795,5	MCF-7	breast:
3	chr9:97767048..97768859-chr9:97873100..97875617,2	MCF-7	breast:
4	chr9:97872125..97874653-chr9:97888365..97890015,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000229065	TF binding region
ENSG00000158169	Chromatin interaction
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1800360	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1886993	0.83[AMR][1000 genomes]
rs2121200	0.83[AMR][1000 genomes]
rs35108112	0.83[AMR][1000 genomes]
rs4647386	0.83[AMR][1000 genomes]
rs4647455	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4647473	0.83[AMR][1000 genomes]
rs4647505	0.83[AMR][1000 genomes]
rs57471585	0.83[AMR][1000 genomes]
rs7034939	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7037729	0.83[AMR][1000 genomes]
rs73528466	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73530498	0.83[AMR][1000 genomes]
rs73532103	0.83[AMR][1000 genomes]
rs73532167	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73532195	0.83[AMR][1000 genomes]
rs73532199	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73534887	0.83[AMR][1000 genomes]
rs73534888	0.83[AMR][1000 genomes]
rs73534898	0.83[AMR][1000 genomes]
rs73537212	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73538039	1.00[AMR][1000 genomes]
rs73539203	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73541330	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7854840	0.83[AMR][1000 genomes]
rs9792481	0.83[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	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases
2	nsv1038106	chr9:97793038-97881416	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
3	nsv1038523	chr9:97797032-97923774	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
4	nsv540175	chr9:97797032-97923774	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
5	nsv831656	chr9:97831551-97989980	Weak transcription Strong transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97820600-97875000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr9:97844000-97898400	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr9:97846200-97880000	Weak transcription	Primary B cells from cord blood	blood
4	chr9:97847600-97878400	Weak transcription	Dnd41	blood
5	chr9:97855200-97876800	Weak transcription	GM12878-XiMat	blood
6	chr9:97855400-97884800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr9:97855600-97876400	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr9:97855600-97878600	Weak transcription	Stomach Mucosa	stomach
9	chr9:97858600-97877200	Strong transcription	Fetal Intestine Large	intestine
10	chr9:97858600-97878400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr9:97860000-97875600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr9:97860400-97879000	Strong transcription	Liver	Liver
13	chr9:97861200-97877200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr9:97861200-97889800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr9:97863200-97875600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr9:97863400-97874800	Weak transcription	Primary hematopoietic stem cells	blood
17	chr9:97863600-97883600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr9:97864000-97877800	Weak transcription	Primary monocytes fromperipheralblood	blood
19	chr9:97865200-97876800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr9:97865200-97877200	Weak transcription	Small Intestine	intestine
21	chr9:97865600-97883600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr9:97865800-97877600	Strong transcription	Fetal Intestine Small	intestine
23	chr9:97866000-97883400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr9:97866000-97889600	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr9:97866200-97889600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr9:97866400-97875200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr9:97866400-97886600	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr9:97867000-97878800	Weak transcription	Right Atrium	heart
29	chr9:97867800-97877000	Strong transcription	Primary T cells from cord blood	blood
30	chr9:97868600-97889400	Weak transcription	Fetal Heart	heart
31	chr9:97869000-97875400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr9:97869400-97874800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
33	chr9:97869400-97875800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr9:97869400-97876000	Strong transcription	Lung	lung
35	chr9:97869600-97874600	Weak transcription	Fetal Brain Female	brain
36	chr9:97869600-97878800	Weak transcription	Brain Germinal Matrix	brain
37	chr9:97869800-97875400	Strong transcription	A549	lung
38	chr9:97869800-97877200	Weak transcription	Primary T cells fromperipheralblood	blood
39	chr9:97869800-97886400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr9:97869800-97889800	Weak transcription	Monocytes-CD14+_RO01746	blood
41	chr9:97870000-97883400	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr9:97870200-97875200	Strong transcription	Osteobl	bone
43	chr9:97870200-97876600	Weak transcription	Fetal Brain Male	brain
44	chr9:97870400-97878600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
45	chr9:97870400-97889600	Weak transcription	Fetal Thymus	thymus
46	chr9:97870600-97889800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr9:97870800-97878800	Weak transcription	Brain Angular Gyrus	brain
48	chr9:97871200-97875800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr9:97871400-97874600	Strong transcription	Colonic Mucosa	Colon
50	chr9:97871600-97875200	Strong transcription	HSMMtube	muscle

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