Variant report

Variant	rs72988165
Chromosome Location	chr3:139942562-139942563
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:139936684..139939530-chr3:139941057..139942593,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1878981	1.00[AMR][1000 genomes]
rs1878983	1.00[AMR][1000 genomes]
rs4557115	1.00[AMR][1000 genomes]
rs58112660	1.00[AMR][1000 genomes]
rs58304638	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58535926	1.00[AMR][1000 genomes]
rs58964530	1.00[AMR][1000 genomes]
rs59740557	1.00[AMR][1000 genomes]
rs60014861	1.00[AMR][1000 genomes]
rs61283355	0.85[AMR][1000 genomes]
rs61627775	1.00[AMR][1000 genomes]
rs72988166	0.88[AFR][1000 genomes]
rs72988167	0.88[AFR][1000 genomes]
rs72988169	0.81[AFR][1000 genomes]
rs72988178	0.88[AFR][1000 genomes]
rs72988193	1.00[AMR][1000 genomes]
rs72988194	1.00[AMR][1000 genomes]
rs72988195	1.00[AMR][1000 genomes]
rs72988198	1.00[AMR][1000 genomes]
rs72988201	1.00[AMR][1000 genomes]
rs72990108	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv998423	chr3:139526446-139947336	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv829739	chr3:139797496-140002685	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv432486	chr3:139924092-140049121	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv2757891	chr3:139925764-140524730	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv2759181	chr3:139925764-140524730	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv829740	chr3:139925767-140106169	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv527831	chr3:139932966-140533823	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv963580	chr3:139936449-139948038	Enhancers Weak transcription Bivalent Enhancer Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:139938600-139944000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:139938600-139953600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr3:139941800-139942600	Enhancers	HSMM	muscle
4	chr3:139941800-139942600	Enhancers	NH-A	brain
5	chr3:139941800-139943000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr3:139941800-139943200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:139941800-139943200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr3:139942000-139942600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr3:139942000-139942600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr3:139942000-139942800	Enhancers	HSMMtube	muscle
11	chr3:139942000-139943000	Enhancers	Muscle Satellite Cultured Cells	--
12	chr3:139942000-139943400	Enhancers	HMEC	breast
13	chr3:139942200-139942800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr3:139942200-139943000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr3:139942200-139943000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr3:139942200-139943000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr3:139942400-139942800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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