Variant report

Variant	rs72621416
Chromosome Location	chr9:98332518-98332519
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:98272232..98274861-chr9:98331837..98334312,2	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs58657350	0.80[EUR][1000 genomes]
rs60767511	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61218176	0.85[EUR][1000 genomes]
rs66563414	0.80[EUR][1000 genomes]
rs67761618	0.86[EUR][1000 genomes]
rs67862902	0.93[EUR][1000 genomes]
rs7038392	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7047169	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72754349	0.89[EUR][1000 genomes]
rs7852976	0.90[EUR][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	nsv531633	chr9:98078300-98431120	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	nsv831658	chr9:98152971-98342178	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv430083	chr9:98204245-98445645	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv1041997	chr9:98322355-98442175	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv540176	chr9:98322355-98442175	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98329600-98332600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr9:98330200-98335000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr9:98330800-98333000	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr9:98331000-98333000	Weak transcription	Spleen	Spleen
5	chr9:98331200-98333800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr9:98331800-98332800	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
7	chr9:98332000-98333800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr9:98332200-98332600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr9:98332200-98332600	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
10	chr9:98332200-98332600	Flanking Active TSS	Fetal Lung	lung
11	chr9:98332200-98332600	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
12	chr9:98332200-98332600	Flanking Active TSS	Osteobl	bone
13	chr9:98332200-98332800	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr9:98332200-98332800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr9:98332200-98332800	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
16	chr9:98332200-98332800	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
17	chr9:98332200-98332800	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
18	chr9:98332200-98332800	Active TSS	Rectal Mucosa Donor 29	rectum
19	chr9:98332200-98332800	Flanking Active TSS	NHLF	lung
20	chr9:98332200-98333000	Enhancers	Primary T helper naive cells from peripheral blood	blood
21	chr9:98332200-98333000	Active TSS	Brain Inferior Temporal Lobe	brain
22	chr9:98332200-98333000	Enhancers	Fetal Kidney	kidney
23	chr9:98332200-98333000	Active TSS	Stomach Smooth Muscle	stomach
24	chr9:98332200-98333400	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
25	chr9:98332200-98333400	Flanking Active TSS	HUVEC	blood vessel
26	chr9:98332200-98333600	Enhancers	ES-I3 Cell Line	embryonic stem cell
27	chr9:98332200-98333800	Enhancers	HUES6 Cell Line	embryonic stem cell
28	chr9:98332400-98332600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr9:98332400-98332600	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
30	chr9:98332400-98332600	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr9:98332400-98332600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr9:98332400-98332600	Flanking Bivalent TSS/Enh	Primary T cells from cord blood	blood
33	chr9:98332400-98332600	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
34	chr9:98332400-98332600	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr9:98332400-98332600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
36	chr9:98332400-98332600	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
37	chr9:98332400-98332600	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
38	chr9:98332400-98332600	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
39	chr9:98332400-98332600	Bivalent Enhancer	Fetal Brain Male	brain
40	chr9:98332400-98332600	Flanking Bivalent TSS/Enh	Fetal Brain Female	brain
41	chr9:98332400-98332600	Flanking Active TSS	Placenta	Placenta
42	chr9:98332400-98332600	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
43	chr9:98332400-98332600	Active TSS	Ovary	ovary
44	chr9:98332400-98332600	Flanking Active TSS	Right Atrium	heart
45	chr9:98332400-98332600	Flanking Active TSS	HSMMtube	muscle
46	chr9:98332400-98332600	Active TSS	NH-A	brain
47	chr9:98332400-98332600	Flanking Active TSS	NHDF-Ad	bronchial
48	chr9:98332400-98332800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr9:98332400-98332800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr9:98332400-98332800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin

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