Variant report

Variant	rs1107061
Chromosome Location	chr3:159494706-159494707
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:159481784..159484583-chr3:159491233..159495537,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000250588	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10936179	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11715088	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12490735	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12491535	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1497762	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1553081	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2010748	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2169305	0.88[ASN][1000 genomes]
rs3851359	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3889309	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3889310	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4679863	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4679865	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4680521	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4680524	0.96[ASN][1000 genomes]
rs56107912	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62270387	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62270397	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6763138	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6771478	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6780187	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7639937	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[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	nsv4084	chr3:159492488-159513251	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159484200-159501200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:159484400-159505400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:159484600-159500400	Weak transcription	Fetal Intestine Small	intestine
4	chr3:159490200-159501400	Weak transcription	Aorta	Aorta
5	chr3:159491000-159495200	Enhancers	Brain Cingulate Gyrus	brain
6	chr3:159491000-159495200	Enhancers	Colon Smooth Muscle	Colon
7	chr3:159491000-159495200	Enhancers	Rectal Smooth Muscle	rectum
8	chr3:159491000-159495200	Enhancers	HUVEC	blood vessel
9	chr3:159492200-159495000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr3:159492400-159495200	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr3:159492600-159495000	Enhancers	Osteobl	bone
12	chr3:159492800-159494800	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr3:159492800-159494800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr3:159492800-159494800	Enhancers	NHDF-Ad	bronchial
15	chr3:159492800-159495200	Enhancers	HSMM	muscle
16	chr3:159493000-159494800	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr3:159493000-159494800	Enhancers	Duodenum Smooth Muscle	Duodenum
18	chr3:159493000-159494800	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr3:159493000-159494800	Enhancers	NH-A	brain
20	chr3:159493000-159495000	Enhancers	Left Ventricle	heart
21	chr3:159493000-159495200	Enhancers	Muscle Satellite Cultured Cells	--
22	chr3:159493000-159495200	Enhancers	Adipose Nuclei	Adipose
23	chr3:159493200-159494800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr3:159493400-159495200	Enhancers	Brain Substantia Nigra	brain
25	chr3:159493400-159495200	Enhancers	HSMMtube	muscle
26	chr3:159493400-159500600	Weak transcription	Gastric	stomach
27	chr3:159493600-159495200	Enhancers	Brain Hippocampus Middle	brain
28	chr3:159493600-159495200	Enhancers	NHLF	lung
29	chr3:159493600-159497000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr3:159493600-159497800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr3:159493600-159497800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr3:159493600-159504400	Weak transcription	Right Atrium	heart
33	chr3:159493600-159505200	Weak transcription	Lung	lung
34	chr3:159493600-159505400	Weak transcription	Fetal Stomach	stomach
35	chr3:159493600-159509200	Weak transcription	Fetal Muscle Trunk	muscle
36	chr3:159493600-159516200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr3:159493800-159495200	Enhancers	Brain Anterior Caudate	brain
38	chr3:159493800-159496800	Weak transcription	A549	lung
39	chr3:159493800-159497400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr3:159493800-159497400	Weak transcription	NHEK	skin
41	chr3:159493800-159497800	Weak transcription	HMEC	breast
42	chr3:159493800-159502800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr3:159494000-159495000	Enhancers	Fetal Heart	heart
44	chr3:159494000-159497800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr3:159494000-159499400	Weak transcription	Fetal Kidney	kidney
46	chr3:159494200-159495000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr3:159494200-159495200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr3:159494200-159495200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
49	chr3:159494400-159495200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr3:159494400-159495200	Enhancers	Stomach Smooth Muscle	stomach

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