Variant report

Variant	rs73006998
Chromosome Location	chr3:150464271-150464272
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	chr3:150320747..150322493-chr3:150463869..150466660,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198843	Chromatin interaction
ENSG00000120742	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10513377	0.87[ASN][1000 genomes]
rs1444197	0.85[EUR][1000 genomes]
rs1533711	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs16862837	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs16862842	0.85[EUR][1000 genomes]
rs1838337	0.85[EUR][1000 genomes]
rs1879420	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1879421	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1879422	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1915365	0.85[EUR][1000 genomes]
rs1991781	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2116684	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2116685	0.82[AMR][1000 genomes]
rs2120596	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2166061	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs41372346	0.85[EUR][1000 genomes]
rs481236	0.80[ASN][1000 genomes]
rs55899470	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56725170	0.84[ASN][1000 genomes]
rs57275328	0.95[AMR][1000 genomes]
rs57359526	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57824095	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs57965761	0.85[EUR][1000 genomes]
rs58403524	0.85[EUR][1000 genomes]
rs58418105	0.81[ASN][1000 genomes]
rs60092981	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60523415	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs60538652	0.92[EUR][1000 genomes]
rs61628582	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6788895	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6789306	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6803830	0.85[EUR][1000 genomes]
rs71764080	0.85[EUR][1000 genomes]
rs73006999	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73008903	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73008905	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73008907	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73010930	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73010941	0.84[AMR][1000 genomes]
rs73010967	0.85[EUR][1000 genomes]
rs7615125	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7615292	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7636866	0.82[ASN][1000 genomes]
rs939476	0.86[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150453800-150478000	Weak transcription	Brain Germinal Matrix	brain
2	chr3:150454600-150469800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr3:150454600-150477200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr3:150454800-150467200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr3:150456400-150477600	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr3:150456600-150477600	Weak transcription	Fetal Brain Male	brain
7	chr3:150456800-150477400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr3:150457000-150478800	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr3:150457600-150477600	Weak transcription	HUVEC	blood vessel
10	chr3:150458200-150466000	Weak transcription	Fetal Kidney	kidney
11	chr3:150458200-150469600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr3:150458400-150471600	Genic enhancers	HepG2	liver
13	chr3:150458600-150467400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr3:150458800-150464400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr3:150458800-150466200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr3:150458800-150469400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr3:150459000-150477600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr3:150459400-150468400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
19	chr3:150460200-150477600	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr3:150460400-150465200	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr3:150460400-150465600	Weak transcription	Brain Hippocampus Middle	brain
22	chr3:150460400-150466200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr3:150460400-150466200	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr3:150460400-150466400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr3:150460400-150467800	Enhancers	Liver	Liver
26	chr3:150460400-150468800	Weak transcription	Colonic Mucosa	Colon
27	chr3:150460400-150469000	Weak transcription	Fetal Thymus	thymus
28	chr3:150460400-150469600	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr3:150460400-150475200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr3:150460400-150477600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr3:150460600-150464400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr3:150460600-150464400	Weak transcription	Thymus	Thymus
33	chr3:150460600-150465000	Weak transcription	Primary monocytes fromperipheralblood	blood
34	chr3:150460600-150466200	Weak transcription	Primary hematopoietic stem cells	blood
35	chr3:150460600-150466400	Enhancers	Placenta	Placenta
36	chr3:150460600-150469600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr3:150460600-150469800	Weak transcription	Fetal Stomach	stomach
38	chr3:150460600-150470600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr3:150460600-150470800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr3:150460800-150464600	Weak transcription	Fetal Muscle Trunk	muscle
41	chr3:150460800-150465000	Weak transcription	Primary B cells from cord blood	blood
42	chr3:150461000-150465000	Weak transcription	Monocytes-CD14+_RO01746	blood
43	chr3:150461000-150465400	Enhancers	Right Atrium	heart
44	chr3:150461200-150464800	Enhancers	Duodenum Mucosa	Duodenum
45	chr3:150461200-150471800	Enhancers	Stomach Mucosa	stomach
46	chr3:150461200-150474000	Weak transcription	Dnd41	blood
47	chr3:150461400-150465600	Enhancers	Rectal Mucosa Donor 29	rectum
48	chr3:150461600-150465200	Weak transcription	Brain Substantia Nigra	brain
49	chr3:150461600-150465800	Enhancers	GM12878-XiMat	blood
50	chr3:150461600-150468200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

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