Variant report

Variant	rs55947901
Chromosome Location	chr3:69832377-69832378
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:69810847..69812666-chr3:69831696..69834546,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000187098	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11128143	0.83[ASN][1000 genomes]
rs12714757	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1367369	0.82[ASN][1000 genomes]
rs17006419	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17043851	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2114660	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2116000	0.80[ASN][1000 genomes]
rs28378222	0.82[ASN][1000 genomes]
rs28613540	0.82[ASN][1000 genomes]
rs4855323	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4855447	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4855448	0.83[ASN][1000 genomes]
rs56286049	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs57537586	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58244283	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58529025	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60551165	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62250970	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62250976	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62250977	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62250978	0.96[EUR][1000 genomes]
rs62250980	0.80[EUR][1000 genomes]
rs62250981	0.80[EUR][1000 genomes]
rs62250982	0.80[EUR][1000 genomes]
rs62252239	0.81[EUR][1000 genomes]
rs6762369	0.81[ASN][1000 genomes]
rs6786207	0.81[ASN][1000 genomes]
rs6786226	0.81[ASN][1000 genomes]
rs7648607	0.82[ASN][1000 genomes]
rs9834743	0.82[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	esv3507784	chr3:69802539-69959607	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv3507785	chr3:69802539-69959607	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1009045	chr3:69821621-69875782	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69814400-69834000	Weak transcription	Right Ventricle	heart
2	chr3:69821200-69834000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:69822400-69834400	Weak transcription	Gastric	stomach
4	chr3:69823600-69833600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr3:69824000-69834000	Weak transcription	Right Atrium	heart
6	chr3:69824000-69834400	Weak transcription	Brain Angular Gyrus	brain
7	chr3:69824000-69837000	Weak transcription	Lung	lung
8	chr3:69824600-69834400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr3:69825800-69833200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr3:69825800-69833200	Weak transcription	Rectal Smooth Muscle	rectum
11	chr3:69825800-69834000	Weak transcription	Aorta	Aorta
12	chr3:69826800-69833200	Weak transcription	NHLF	lung
13	chr3:69827200-69834200	Weak transcription	Brain Anterior Caudate	brain
14	chr3:69827400-69833000	Weak transcription	Brain Substantia Nigra	brain
15	chr3:69827400-69839200	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr3:69827800-69833800	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr3:69828400-69836600	Enhancers	Fetal Heart	heart
18	chr3:69828600-69834000	Weak transcription	Adipose Nuclei	Adipose
19	chr3:69829600-69833200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr3:69830000-69835600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr3:69830000-69836000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr3:69830800-69833000	Weak transcription	HSMMtube	muscle
23	chr3:69831000-69833000	Weak transcription	HSMM	muscle
24	chr3:69831000-69834000	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr3:69831000-69835600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr3:69831200-69833200	Weak transcription	K562	blood
27	chr3:69831200-69834000	Weak transcription	Brain Cingulate Gyrus	brain
28	chr3:69831200-69834000	Weak transcription	Fetal Thymus	thymus
29	chr3:69831200-69834000	Weak transcription	Psoas Muscle	Psoas
30	chr3:69831400-69832800	Weak transcription	Stomach Smooth Muscle	stomach
31	chr3:69831400-69833000	Weak transcription	Brain Hippocampus Middle	brain
32	chr3:69831400-69833200	Weak transcription	Colon Smooth Muscle	Colon
33	chr3:69831400-69834000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr3:69831400-69834000	Weak transcription	Left Ventricle	heart
35	chr3:69831400-69834000	Weak transcription	Ovary	ovary
36	chr3:69831600-69832400	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr3:69831800-69834000	Weak transcription	Skeletal Muscle Female	skeletal muscle

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