Variant report

Variant	rs73401224
Chromosome Location	chr15:39799548-39799549
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:39798382..39801235-chr15:39873000..39875573,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137801	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs16952161	1.00[AMR][1000 genomes]
rs16969165	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16969168	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16969280	1.00[AMR][1000 genomes]
rs16969283	1.00[AMR][1000 genomes]
rs16969285	1.00[AMR][1000 genomes]
rs16969287	1.00[AMR][1000 genomes]
rs16969291	1.00[AMR][1000 genomes]
rs16969292	1.00[AMR][1000 genomes]
rs16969296	1.00[AMR][1000 genomes]
rs16969300	1.00[AMR][1000 genomes]
rs16969305	1.00[AMR][1000 genomes]
rs16969309	1.00[AMR][1000 genomes]
rs16969312	1.00[AMR][1000 genomes]
rs16969314	1.00[AMR][1000 genomes]
rs58092559	1.00[AMR][1000 genomes]
rs59831722	1.00[AMR][1000 genomes]
rs61018982	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73383183	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73383185	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73401215	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8039642	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9806602	1.00[AMR][1000 genomes]
rs9806608	1.00[AMR][1000 genomes]
rs9806620	1.00[AMR][1000 genomes]
rs9806627	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv904094	chr15:39738006-39976057	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 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	chr15:39789000-39800800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr15:39789000-39803200	Weak transcription	Left Ventricle	heart
3	chr15:39791600-39803200	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr15:39791600-39803400	Weak transcription	Fetal Lung	lung
5	chr15:39792200-39803600	Weak transcription	Ovary	ovary
6	chr15:39793800-39802200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr15:39793800-39803200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr15:39793800-39803400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:39794000-39800600	Weak transcription	HSMM	muscle
10	chr15:39794400-39802800	Weak transcription	Fetal Heart	heart
11	chr15:39794600-39801000	Weak transcription	Fetal Muscle Trunk	muscle
12	chr15:39795400-39800600	Weak transcription	K562	blood
13	chr15:39795400-39803200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr15:39796200-39799600	Enhancers	Osteobl	bone
15	chr15:39796800-39804000	Weak transcription	Lung	lung
16	chr15:39797000-39803200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr15:39797600-39800800	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr15:39797600-39800800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr15:39797600-39803200	Weak transcription	Colon Smooth Muscle	Colon
20	chr15:39797800-39800800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr15:39798000-39802400	Weak transcription	NHDF-Ad	bronchial
22	chr15:39798400-39803200	Weak transcription	NHLF	lung
23	chr15:39798800-39800800	Weak transcription	Fetal Muscle Leg	muscle
24	chr15:39799200-39800600	Weak transcription	HSMMtube	muscle
25	chr15:39799200-39802000	Weak transcription	NH-A	brain
26	chr15:39799200-39803200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr15:39799400-39799600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr15:39799400-39800600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr15:39799400-39803200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr15:39799400-39803200	Weak transcription	HMEC	breast

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