Variant report

Variant	rs55690669
Chromosome Location	chr3:69581895-69581896
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:69571452..69574108-chr3:69580987..69582524,2	MCF-7	breast:
2	chr3:69580612..69582745-chr3:69806053..69807970,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000187098	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs17006070	1.00[AMR][1000 genomes]
rs17006073	1.00[AMR][1000 genomes]
rs17006111	1.00[AMR][1000 genomes]
rs55746200	1.00[AMR][1000 genomes]
rs73835874	1.00[AFR][1000 genomes]
rs73835877	1.00[AMR][1000 genomes]
rs73835900	1.00[AMR][1000 genomes]
rs73836165	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007730	chr3:69355932-69730587	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv3426797	chr3:69433086-69777229	Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69560000-69584800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:69577400-69584600	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr3:69578200-69583400	Enhancers	Fetal Lung	lung
4	chr3:69578800-69585000	Weak transcription	Lung	lung
5	chr3:69579400-69582800	Enhancers	Brain Anterior Caudate	brain
6	chr3:69580200-69582600	Enhancers	Fetal Brain Male	brain
7	chr3:69580400-69582800	Enhancers	Fetal Brain Female	brain
8	chr3:69580600-69582200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr3:69580600-69583000	Enhancers	Brain Angular Gyrus	brain
10	chr3:69580600-69583600	Enhancers	Brain Hippocampus Middle	brain
11	chr3:69580600-69585600	Enhancers	Brain Substantia Nigra	brain
12	chr3:69580800-69582400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:69580800-69582400	Enhancers	HMEC	breast
14	chr3:69580800-69582600	Enhancers	Brain Cingulate Gyrus	brain
15	chr3:69581000-69582200	Enhancers	Colon Smooth Muscle	Colon
16	chr3:69581000-69582200	Enhancers	Fetal Stomach	stomach
17	chr3:69581000-69582800	Enhancers	Brain Germinal Matrix	brain
18	chr3:69581000-69583200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr3:69581200-69583000	Enhancers	Right Atrium	heart
20	chr3:69581400-69582000	Enhancers	Stomach Smooth Muscle	stomach
21	chr3:69581400-69582600	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr3:69581400-69582600	Enhancers	Fetal Heart	heart
23	chr3:69581400-69582800	Enhancers	Brain Inferior Temporal Lobe	brain
24	chr3:69581400-69587400	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr3:69581600-69582000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr3:69581600-69582000	Enhancers	Ovary	ovary
27	chr3:69581600-69582800	Enhancers	Fetal Muscle Leg	muscle
28	chr3:69581800-69583000	Enhancers	Right Ventricle	heart
29	chr3:69581800-69583000	Enhancers	Spleen	Spleen
30	chr3:69581800-69583400	Genic enhancers	NHEK	skin

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