Variant report

Variant	rs28619899
Chromosome Location	chr15:73341896-73341897
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	chr15:73074691..73078350-chr15:73341676..73346479,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000159322	Chromatin interaction
ENSG00000260898	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12592184	0.90[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1479336	0.87[ASN][1000 genomes]
rs2680346	0.81[ASN][1000 genomes]
rs28462360	0.84[ASN][1000 genomes]
rs4776629	0.85[ASN][1000 genomes]
rs55787640	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs56402186	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs58859253	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59537860	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60685845	0.82[ASN][1000 genomes]
rs66466251	0.85[ASN][1000 genomes]
rs66881913	0.95[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs66931013	0.90[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs67999476	0.90[ASN][1000 genomes]
rs68053508	0.92[ASN][1000 genomes]
rs68123262	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7163504	0.94[ASN][1000 genomes]
rs7168651	0.90[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7168829	0.95[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs72739445	0.85[ASN][1000 genomes]
rs8033192	0.82[ASN][1000 genomes]
rs8041219	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	esv3352103	chr15:73191535-73454001	Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv482421	chr15:73279141-73426897	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv904338	chr15:73313691-73483718	Enhancers Active TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73336000-73343200	Weak transcription	Fetal Brain Female	brain
2	chr15:73339200-73343400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr15:73339400-73343600	Weak transcription	Pancreas	Pancrea
4	chr15:73339600-73343200	Weak transcription	Fetal Brain Male	brain
5	chr15:73341000-73342800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr15:73341400-73342600	Weak transcription	Fetal Intestine Large	intestine
7	chr15:73341400-73343000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr15:73341400-73343200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr15:73341600-73342000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr15:73341600-73342000	Enhancers	Brain Anterior Caudate	brain
11	chr15:73341600-73342800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr15:73341600-73343400	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr15:73341600-73343400	Enhancers	Brain Cingulate Gyrus	brain
14	chr15:73341800-73342000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr15:73341800-73342000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr15:73341800-73342000	Enhancers	Brain Germinal Matrix	brain
17	chr15:73341800-73342000	Enhancers	Fetal Stomach	stomach
18	chr15:73341800-73342600	Enhancers	Brain Substantia Nigra	brain
19	chr15:73341800-73343200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr15:73341800-73343200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr15:73341800-73343200	Enhancers	Fetal Lung	lung
22	chr15:73341800-73343400	Enhancers	Brain Hippocampus Middle	brain

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