Variant report

Variant	rs74017421
Chromosome Location	chr15:53828321-53828322
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:53827679..53829939-chr15:53831104..53833276,2	MCF-7	breast:
2	chr15:53824780..53826743-chr15:53827628..53831569,3	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs2414251	1.00[AMR][1000 genomes]
rs34123953	1.00[AMR][1000 genomes]
rs56021461	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];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	1.00[EUR][1000 genomes]
rs58089322	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58528595	1.00[EUR][1000 genomes]
rs58747426	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59180677	1.00[EUR][1000 genomes]
rs60043908	1.00[EUR][1000 genomes]
rs60084149	1.00[EUR][1000 genomes]
rs7165501	1.00[AMR][1000 genomes]
rs7175616	1.00[AMR][1000 genomes]
rs7177602	1.00[AMR][1000 genomes]
rs7180807	1.00[AMR][1000 genomes]
rs7180855	1.00[AMR][1000 genomes]
rs73406205	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73406217	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];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]
rs74017404	1.00[EUR][1000 genomes]
rs74017409	1.00[EUR][1000 genomes]
rs74017411	1.00[EUR][1000 genomes]
rs8023952	1.00[AMR][1000 genomes]
rs8039090	1.00[AMR][1000 genomes]
rs8039727	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 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
8	nsv9267	chr15:53821005-54132612	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53817400-53839400	Weak transcription	Liver	Liver
2	chr15:53823200-53832000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr15:53827000-53828600	Enhancers	A549	lung
4	chr15:53827400-53828400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr15:53827600-53829400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr15:53827800-53828400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr15:53827800-53829200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr15:53828000-53828400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr15:53828000-53829000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr15:53828200-53828600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr15:53828200-53829600	Enhancers	Brain Germinal Matrix	brain

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