Variant report

Variant	rs2162269
Chromosome Location	chr15:73090262-73090263
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	chr15:73074665..73076706-chr15:73087969..73090842,2	MCF-7	breast:
2	chr15:73075478..73077240-chr15:73088891..73091683,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260898	Chromatin interaction
ENSG00000159322	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10459647	0.86[ASN][1000 genomes]
rs11072385	0.84[ASN][1000 genomes]
rs11631214	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11631352	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11637168	0.94[ASN][1000 genomes]
rs12900863	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12911743	0.91[ASN][1000 genomes]
rs2277598	0.83[ASN][1000 genomes]
rs2304597	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs28582982	0.92[ASN][1000 genomes]
rs34117151	0.81[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs3850986	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3959716	0.87[ASN][1000 genomes]
rs4776613	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4776614	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4777532	0.88[ASN][1000 genomes]
rs4777534	0.90[ASN][1000 genomes]
rs4777536	0.90[ASN][1000 genomes]
rs4777542	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4777546	0.91[ASN][1000 genomes]
rs4777548	0.88[ASN][1000 genomes]
rs62017600	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7164727	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7166595	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7171728	0.90[ASN][1000 genomes]
rs7176223	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs8024986	0.86[ASN][1000 genomes]
rs8025333	0.86[ASN][1000 genomes]
rs8027181	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8030477	0.80[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8033073	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs8038247	0.81[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs890354	0.94[ASN][1000 genomes]
rs9460	0.82[AMR][1000 genomes];0.90[ASN][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	esv2758386	chr15:72819785-73120560	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	esv2760039	chr15:72819785-73120560	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv428307	chr15:72819785-73120560	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
4	nsv482512	chr15:73023099-73175952	Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73088800-73090400	Active TSS	Brain Anterior Caudate	brain
2	chr15:73089800-73090400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr15:73089800-73090400	Active TSS	Rectal Mucosa Donor 31	rectum
4	chr15:73089800-73090400	Active TSS	HepG2	liver
5	chr15:73089800-73090600	Enhancers	Fetal Lung	lung
6	chr15:73089800-73092600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr15:73089800-73092800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr15:73089800-73092800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr15:73089800-73092800	Weak transcription	Aorta	Aorta
10	chr15:73089800-73093000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr15:73089800-73094200	Weak transcription	Fetal Heart	heart
12	chr15:73089800-73094200	Weak transcription	Fetal Kidney	kidney
13	chr15:73090000-73090400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr15:73090000-73090400	Enhancers	Brain Cingulate Gyrus	brain
15	chr15:73090000-73090400	Enhancers	A549	lung
16	chr15:73090000-73090400	Enhancers	Osteobl	bone
17	chr15:73090000-73090600	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr15:73090000-73091200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr15:73090000-73091400	Enhancers	Primary neutrophils fromperipheralblood	blood
20	chr15:73090000-73092200	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr15:73090000-73092600	Weak transcription	Adipose Nuclei	Adipose
22	chr15:73090000-73092800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr15:73090000-73092800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr15:73090000-73093000	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr15:73090000-73093200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr15:73090000-73093400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
27	chr15:73090000-73093400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr15:73090000-73094200	Weak transcription	Right Atrium	heart
29	chr15:73090200-73090400	Enhancers	ES-I3 Cell Line	embryonic stem cell
30	chr15:73090200-73090400	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr15:73090200-73090400	Enhancers	iPS-18 Cell Line	embryonic stem cell
32	chr15:73090200-73092200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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