Variant report

Variant	rs58874363
Chromosome Location	chr3:145844512-145844513
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:145832521..145835172-chr3:145842139..145845404,4	MCF-7	breast:
2	chr3:145843855..145845524-chr3:145864168..145866252,2	MCF-7	breast:
3	chr3:145843180..145847334-chr3:145876555..145880843,5	MCF-7	breast:
4	chr3:145841131..145847641-chr3:145875218..145882802,13	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152952	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12632001	0.88[AFR][1000 genomes]
rs12695805	0.81[AMR][1000 genomes]
rs1449442	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2864794	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3792347	0.81[AMR][1000 genomes]
rs59384952	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs59850864	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67154251	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs67325724	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs67671074	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6787634	0.80[ASN][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	nsv525829	chr3:145614317-145863779	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv4046	chr3:145693249-145880189	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv877613	chr3:145833232-145912055	Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:145784600-145848800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr3:145810400-145849800	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr3:145810800-145851200	Weak transcription	Brain Hippocampus Middle	brain
4	chr3:145819800-145849200	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr3:145821000-145849800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr3:145827000-145855200	Weak transcription	Aorta	Aorta
7	chr3:145831400-145848400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr3:145832000-145870800	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr3:145832600-145848400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr3:145834200-145851200	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr3:145834400-145851400	Weak transcription	Primary hematopoietic stem cells	blood
12	chr3:145834600-145852800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:145835200-145851200	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr3:145835200-145852200	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr3:145835600-145851200	Weak transcription	Fetal Kidney	kidney
16	chr3:145835800-145846000	Weak transcription	Fetal Intestine Small	intestine
17	chr3:145835800-145874000	Weak transcription	Psoas Muscle	Psoas
18	chr3:145836000-145852400	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr3:145837000-145848800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr3:145837000-145852400	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr3:145837200-145845800	Weak transcription	Stomach Smooth Muscle	stomach
22	chr3:145837200-145846000	Weak transcription	Adipose Nuclei	Adipose
23	chr3:145837200-145846000	Weak transcription	Fetal Lung	lung
24	chr3:145837200-145851200	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr3:145839200-145845200	Weak transcription	Colon Smooth Muscle	Colon
26	chr3:145839400-145847600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr3:145839800-145849000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr3:145839800-145851400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr3:145840000-145852400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr3:145840200-145847600	Weak transcription	HSMMtube	muscle
31	chr3:145840200-145849800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr3:145840400-145846000	Weak transcription	Fetal Intestine Large	intestine
33	chr3:145840400-145874000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr3:145840600-145845000	Weak transcription	Liver	Liver
35	chr3:145840600-145848600	Weak transcription	Fetal Stomach	stomach
36	chr3:145841800-145845000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr3:145842000-145846200	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr3:145842000-145849800	Weak transcription	HMEC	breast
39	chr3:145842800-145845200	Enhancers	Osteobl	bone
40	chr3:145843000-145844800	Enhancers	Muscle Satellite Cultured Cells	--
41	chr3:145843200-145845200	Genic enhancers	HSMM	muscle
42	chr3:145843400-145848800	Weak transcription	Right Atrium	heart
43	chr3:145843400-145851200	Weak transcription	Rectal Smooth Muscle	rectum
44	chr3:145843600-145848800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr3:145843600-145848800	Weak transcription	Ovary	ovary
46	chr3:145843600-145855200	Weak transcription	Left Ventricle	heart
47	chr3:145843600-145861200	Weak transcription	Right Ventricle	heart
48	chr3:145843800-145844800	Enhancers	HUVEC	blood vessel
49	chr3:145844000-145844600	Enhancers	NHLF	lung
50	chr3:145844000-145845800	ZNF genes & repeats	A549	lung

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