Variant report

Variant	rs74017409
Chromosome Location	chr15:53820296-53820297
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:53819186..53821862-chr15:53832013..53833955,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166415	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1906416	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55715537	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55900650	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56021461	1.00[EUR][1000 genomes]
rs56087131	1.00[EUR][1000 genomes]
rs56270636	1.00[EUR][1000 genomes]
rs56318546	1.00[EUR][1000 genomes]
rs56375061	1.00[EUR][1000 genomes]
rs57715130	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58089322	1.00[EUR][1000 genomes]
rs58528595	1.00[EUR][1000 genomes]
rs59180677	1.00[EUR][1000 genomes]
rs59621113	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60043908	1.00[EUR][1000 genomes]
rs60084149	1.00[EUR][1000 genomes]
rs60582189	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61413867	0.88[AFR][1000 genomes]
rs73406205	1.00[EUR][1000 genomes]
rs73406217	1.00[EUR][1000 genomes]
rs73406229	1.00[EUR][1000 genomes]
rs73406234	1.00[EUR][1000 genomes]
rs73406236	1.00[EUR][1000 genomes]
rs73406245	1.00[EUR][1000 genomes]
rs73406271	1.00[EUR][1000 genomes]
rs73406272	1.00[EUR][1000 genomes]
rs73406274	1.00[EUR][1000 genomes]
rs74015392	1.00[AMR][1000 genomes]
rs74015398	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74015400	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74015401	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74017403	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74017404	1.00[EUR][1000 genomes]
rs74017407	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74017410	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74017411	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74017413	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74017421	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904223	chr15:53665247-54340070	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv904224	chr15:53668018-54210677	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1052235	chr15:53677524-54618723	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv542388	chr15:53677524-54618723	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv1040216	chr15:53743780-53851679	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv833009	chr15:53752901-53935303	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv1038512	chr15:53803770-53851679	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53802000-53828000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:53804200-53821600	Weak transcription	A549	lung
3	chr15:53815600-53820400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr15:53815600-53822800	Weak transcription	Fetal Lung	lung
5	chr15:53817400-53839400	Weak transcription	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links