Variant report

Variant	rs28758988
Chromosome Location	chr15:50537888-50537889
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:50527759..50530671-chr15:50537665..50540543,4	MCF-7	breast:
2	chr15:50537821..50541238-chr15:50550138..50551900,3	MCF-7	breast:
3	chr15:50537515..50540113-chr15:50546589..50548323,2	MCF-7	breast:

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

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

rs_ID	r²[population]
rs10519264	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12909764	0.89[ASN][1000 genomes]
rs1529341	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1529342	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1529343	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1529344	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1549521	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16963414	0.91[ASN][1000 genomes]
rs16963459	1.00[ASN][1000 genomes]
rs16963474	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16963477	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16963481	0.93[ASN][1000 genomes]
rs16963485	0.93[ASN][1000 genomes]
rs16963493	0.93[ASN][1000 genomes]
rs16963496	0.93[ASN][1000 genomes]
rs16963517	0.86[EUR][1000 genomes]
rs17848325	0.98[ASN][1000 genomes]
rs2073440	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2081629	0.86[EUR][1000 genomes]
rs2238294	0.93[ASN][1000 genomes]
rs28392818	0.86[EUR][1000 genomes]
rs34406040	0.86[EUR][1000 genomes]
rs56405312	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57018658	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57796210	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58090772	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58421641	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58548530	0.98[ASN][1000 genomes]
rs60425623	0.98[ASN][1000 genomes]
rs61699680	0.93[ASN][1000 genomes]
rs7163360	0.93[ASN][1000 genomes]
rs7163895	0.93[ASN][1000 genomes]
rs7164386	0.93[ASN][1000 genomes]
rs7166052	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7166426	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7166844	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7166950	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7167126	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7167784	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7168181	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7183971	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73397258	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73397259	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73397262	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73397266	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73397268	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73397273	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73397279	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73397282	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73399203	0.84[ASN][1000 genomes]
rs8028354	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	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:15 , 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	chr15:50525800-50538600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr15:50527600-50538800	Weak transcription	Primary hematopoietic stem cells	blood
5	chr15:50529400-50538800	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr15:50530200-50538600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr15:50530200-50538800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr15:50530800-50539600	Weak transcription	Hela-S3	cervix
9	chr15:50532400-50549600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr15:50534400-50538800	Weak transcription	K562	blood
11	chr15:50534600-50540000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr15:50535400-50539000	Enhancers	HepG2	liver
13	chr15:50535600-50540600	Weak transcription	Right Atrium	heart
14	chr15:50537000-50539800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr15:50537200-50544000	Enhancers	Liver	Liver

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