Variant report

Variant	rs1549521
Chromosome Location	chr15:50534832-50534833
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:50534626..50536790-chr15:50538618..50540391,2	MCF-7	breast:
2	chr15:50532874..50535917-chr15:50560036..50563874,3	MCF-7	breast:
3	chr15:50523032..50525333-chr15:50534285..50537038,2	MCF-7	breast:
4	chr15:50529157..50531551-chr15:50532613..50535135,3	K562	blood:
5	chr15:50533027..50536011-chr15:50544639..50546670,2	K562	blood:
6	chr15:50528875..50531228-chr15:50534308..50536553,2	MCF-7	breast:
7	chr15:50533336..50535528-chr15:50541977..50544070,2	K562	blood:

Variant related genes	Relation type
ENSG00000140287	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10519264	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12909764	0.82[ASN][1000 genomes]
rs1529341	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1529342	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1529343	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1529344	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16963414	0.86[CHB][hapmap];0.84[ASN][1000 genomes]
rs16963459	0.88[CHB][hapmap];0.93[ASN][1000 genomes]
rs16963474	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16963477	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16963481	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16963485	1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16963493	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16963496	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16963517	1.00[CEU][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs17848325	0.90[ASN][1000 genomes]
rs2073440	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2081629	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs2238294	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs28392818	0.86[EUR][1000 genomes]
rs28758988	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34406040	0.86[EUR][1000 genomes]
rs56405312	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57018658	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57796210	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58090772	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58421641	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58548530	0.90[ASN][1000 genomes]
rs60425623	0.90[ASN][1000 genomes]
rs61699680	1.00[ASN][1000 genomes]
rs6493418	1.00[CEU][hapmap]
rs7163360	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7163895	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7164386	0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7166052	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7166426	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7166844	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7166950	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7167126	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7167784	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7168181	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7183971	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73397258	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73397259	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73397262	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73397266	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73397268	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73397273	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73397279	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73397282	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8024393	1.00[TSI][hapmap]
rs8028354	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8032602	1.00[JPT][hapmap]
rs9920490	0.81[ASW][hapmap];0.98[LWK][hapmap];0.88[MKK][hapmap];0.81[AFR][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:17 , 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	chr15:50529400-50538800	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr15:50530200-50538600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr15:50530200-50538800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr15:50530800-50539600	Weak transcription	Hela-S3	cervix
11	chr15:50532400-50549600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr15:50532800-50535000	Enhancers	HepG2	liver
13	chr15:50533200-50535200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr15:50534400-50538800	Weak transcription	K562	blood
15	chr15:50534600-50535600	Weak transcription	Liver	Liver
16	chr15:50534600-50536600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr15:50534600-50540000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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