Variant report

Variant	rs28481558
Chromosome Location	chr15:73363854-73363855
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:73361985..73364590-chr15:73365433..73367284,2	K562	blood:
2	chr15:73361829..73364780-chr17:57931295..57933567,2	MCF-7	breast:
3	chr15:73343705..73346818-chr15:73362401..73364225,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000067141	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10467949	0.94[ASN][1000 genomes]
rs11632639	0.99[ASN][1000 genomes]
rs11856922	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12899246	0.94[ASN][1000 genomes]
rs12916928	1.00[ASN][1000 genomes]
rs1479337	0.95[ASN][1000 genomes]
rs2010793	0.94[ASN][1000 genomes]
rs28743094	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28842482	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35060813	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4132535	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4625692	0.81[AFR][1000 genomes]
rs4777582	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4777583	0.98[ASN][1000 genomes]
rs4777589	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4777591	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58060856	0.81[ASN][1000 genomes]
rs6416501	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6416502	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6495047	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7164894	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7172021	0.81[ASN][1000 genomes]
rs7172396	0.81[ASN][1000 genomes]
rs7173142	0.98[ASN][1000 genomes]
rs7175329	0.94[ASN][1000 genomes]
rs7495458	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8026579	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs922516	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9920186	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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
4	nsv517966	chr15:73349633-73488753	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv525462	chr15:73349633-73563495	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73349400-73367000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr15:73352000-73365000	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr15:73353800-73366000	Weak transcription	Fetal Intestine Large	intestine
4	chr15:73353800-73367400	Weak transcription	Fetal Intestine Small	intestine
5	chr15:73354400-73364800	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr15:73355200-73365200	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr15:73355600-73365800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr15:73358000-73367000	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr15:73359200-73366000	Weak transcription	Fetal Brain Male	brain
10	chr15:73359200-73370600	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr15:73359600-73365400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr15:73359600-73367400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr15:73359800-73365600	Weak transcription	Brain Cingulate Gyrus	brain
14	chr15:73360400-73365000	Weak transcription	Brain Angular Gyrus	brain
15	chr15:73361000-73372400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr15:73361400-73366200	Weak transcription	Brain Anterior Caudate	brain
17	chr15:73363400-73364200	Enhancers	Aorta	Aorta
18	chr15:73363400-73370200	Weak transcription	Ovary	ovary
19	chr15:73363800-73364800	Weak transcription	Brain Substantia Nigra	brain
20	chr15:73363800-73365000	Weak transcription	Brain Hippocampus Middle	brain

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