Variant report

Variant	rs16963481
Chromosome Location	chr15:50534454-50534455
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:50532874..50535917-chr15:50560036..50563874,3	MCF-7	breast:
2	chr15:50523032..50525333-chr15:50534285..50537038,2	MCF-7	breast:
3	chr15:50529157..50531551-chr15:50532613..50535135,3	K562	blood:
4	chr15:50533027..50536011-chr15:50544639..50546670,2	K562	blood:
5	chr15:50528875..50531228-chr15:50534308..50536553,2	MCF-7	breast:
6	chr15:50533336..50535528-chr15:50541977..50544070,2	K562	blood:

Variant related genes	Relation type
ENSG00000140287	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10519264	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs12909764	0.82[ASN][1000 genomes]
rs1529341	0.88[CHB][hapmap];0.88[YRI][hapmap];0.90[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs1529342	0.93[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs1529343	0.88[CHB][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs1529344	0.86[CHB][hapmap];0.82[JPT][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1549521	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16963414	0.86[CHB][hapmap];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16963459	0.88[CHB][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16963474	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16963477	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16963485	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16963493	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16963496	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17848325	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2073440	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2238294	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28758988	0.93[ASN][1000 genomes]
rs3784291	1.00[EUR][1000 genomes]
rs56405312	0.96[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs57018658	0.96[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs57796210	0.92[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs58090772	0.85[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs58421641	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs58548530	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60425623	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61699680	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7163360	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7163895	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7164386	0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7165554	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7166052	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7166426	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7166844	0.93[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7166950	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7167126	0.93[ASN][1000 genomes]
rs7167784	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7168181	0.94[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7183971	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs73395108	1.00[EUR][1000 genomes]
rs73397258	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs73397259	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs73397262	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs73397266	0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs73397268	0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs73397273	0.95[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs73397279	0.97[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs73397282	0.97[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs73409113	1.00[EUR][1000 genomes]
rs8028354	0.93[ASN][1000 genomes]
rs8032602	1.00[JPT][hapmap]

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	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv1035983	chr15:50223334-50595170	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv542382	chr15:50223334-50595170	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 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	chr15:50503600-50539800	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr15:50508000-50539800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr15:50515800-50537200	Weak transcription	Gastric	stomach
4	chr15:50520200-50537200	Weak transcription	Pancreas	Pancrea
5	chr15:50525800-50538600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr15:50527600-50538800	Weak transcription	Primary hematopoietic stem cells	blood
7	chr15:50529400-50534600	Enhancers	Liver	Liver
8	chr15:50529400-50538800	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr15:50530200-50538600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr15:50530200-50538800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr15:50530800-50539600	Weak transcription	Hela-S3	cervix
12	chr15:50532400-50549600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr15:50532800-50535000	Enhancers	HepG2	liver
14	chr15:50533200-50535200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr15:50533600-50534600	Enhancers	NHDF-Ad	bronchial
16	chr15:50533800-50534600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr15:50533800-50534600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr15:50533800-50534600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr15:50534400-50534600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr15:50534400-50538800	Weak transcription	K562	blood

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