Variant report

Variant	rs34406040
Chromosome Location	chr15:50544871-50544872
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	chr15:50543402..50546278-chr15:50645480..50648581,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000104064	Chromatin interaction
ENSG00000244879	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1529341	0.86[EUR][1000 genomes]
rs1529342	0.86[EUR][1000 genomes]
rs1529343	0.86[EUR][1000 genomes]
rs1529344	0.86[EUR][1000 genomes]
rs1549521	0.86[EUR][1000 genomes]
rs16963474	0.86[EUR][1000 genomes]
rs16963477	0.86[EUR][1000 genomes]
rs16963517	1.00[EUR][1000 genomes]
rs2073440	0.86[EUR][1000 genomes]
rs2081629	1.00[EUR][1000 genomes]
rs28392818	1.00[EUR][1000 genomes]
rs28758988	0.86[EUR][1000 genomes]
rs56405312	0.86[EUR][1000 genomes]
rs57018658	1.00[EUR][1000 genomes]
rs57796210	0.86[EUR][1000 genomes]
rs58421641	0.86[EUR][1000 genomes]
rs7166052	0.86[EUR][1000 genomes]
rs7166426	0.86[EUR][1000 genomes]
rs7166844	0.86[EUR][1000 genomes]
rs7166950	0.86[EUR][1000 genomes]
rs7167126	0.86[EUR][1000 genomes]
rs7167784	0.86[EUR][1000 genomes]
rs7168181	0.86[EUR][1000 genomes]
rs7183971	0.86[EUR][1000 genomes]
rs73397258	0.86[EUR][1000 genomes]
rs73397259	0.86[EUR][1000 genomes]
rs73397268	0.86[EUR][1000 genomes]
rs73397273	0.86[EUR][1000 genomes]
rs73397279	0.86[EUR][1000 genomes]
rs73397282	0.86[EUR][1000 genomes]
rs8028354	0.86[EUR][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:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:50532400-50549600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:50542200-50548200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr15:50542400-50548400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr15:50543800-50548000	Weak transcription	K562	blood
5	chr15:50544400-50546400	Weak transcription	Hela-S3	cervix
6	chr15:50544600-50548000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr15:50544600-50549200	Weak transcription	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links