Variant report

Variant	rs73006999
Chromosome Location	chr3:150465010-150465011
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150320747..150322493-chr3:150463869..150466660,3	MCF-7	breast:
2	chr3:150457190..150462784-chr3:150464439..150467778,5	K562	blood:
3	chr3:150448693..150451587-chr3:150464289..150466190,2	K562	blood:

Variant related genes	Relation type
ENSG00000198843	Chromatin interaction
ENSG00000120742	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1148368	0.83[ASN][1000 genomes]
rs12695960	0.85[ASN][1000 genomes]
rs1533711	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16862837	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1879420	0.82[ASN][1000 genomes]
rs1879421	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1879422	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1991781	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2018246	0.84[ASN][1000 genomes]
rs2116685	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2166061	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs481236	0.96[ASN][1000 genomes]
rs502941	0.96[ASN][1000 genomes]
rs55899470	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57275328	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57824095	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs594926	0.96[ASN][1000 genomes]
rs6788895	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6789306	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73006998	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73008903	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73008905	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73008907	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73010930	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73010941	0.84[AMR][1000 genomes]
rs7615125	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7615292	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7636866	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[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	chr3:150458800-150466200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr3:150458800-150469400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr3:150459000-150477600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr3:150459400-150468400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
18	chr3:150460200-150477600	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr3:150460400-150465200	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr3:150460400-150465600	Weak transcription	Brain Hippocampus Middle	brain
21	chr3:150460400-150466200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr3:150460400-150466200	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr3:150460400-150466400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr3:150460400-150467800	Enhancers	Liver	Liver
25	chr3:150460400-150468800	Weak transcription	Colonic Mucosa	Colon
26	chr3:150460400-150469000	Weak transcription	Fetal Thymus	thymus
27	chr3:150460400-150469600	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr3:150460400-150475200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr3:150460400-150477600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr3:150460600-150466200	Weak transcription	Primary hematopoietic stem cells	blood
31	chr3:150460600-150466400	Enhancers	Placenta	Placenta
32	chr3:150460600-150469600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr3:150460600-150469800	Weak transcription	Fetal Stomach	stomach
34	chr3:150460600-150470600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr3:150460600-150470800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr3:150461000-150465400	Enhancers	Right Atrium	heart
37	chr3:150461200-150471800	Enhancers	Stomach Mucosa	stomach
38	chr3:150461200-150474000	Weak transcription	Dnd41	blood
39	chr3:150461400-150465600	Enhancers	Rectal Mucosa Donor 29	rectum
40	chr3:150461600-150465200	Weak transcription	Brain Substantia Nigra	brain
41	chr3:150461600-150465800	Enhancers	GM12878-XiMat	blood
42	chr3:150461600-150468200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr3:150461600-150469000	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr3:150461600-150469200	Weak transcription	Primary T cells from cord blood	blood
45	chr3:150461800-150468600	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
46	chr3:150461800-150469600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr3:150461800-150472000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr3:150462200-150465400	Enhancers	Psoas Muscle	Psoas
49	chr3:150462400-150465200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
50	chr3:150462800-150465200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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