Variant report

Variant	rs40169
Chromosome Location	chr5:57662551-57662552
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:57660704..57663602-chr5:57753863..57756016,3	MCF-7	breast:
2	chr5:57660346..57663581-chr5:57663913..57666840,3	MCF-7	breast:
3	chr5:57657859..57660556-chr5:57662293..57664197,2	K562	blood:
4	chr5:57662265..57664102-chr5:57743595..57746486,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145632	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1508920	0.95[ASN][1000 genomes]
rs151918	1.00[ASN][1000 genomes]
rs181748	1.00[ASN][1000 genomes]
rs1848512	0.85[AFR][1000 genomes]
rs2021395	0.84[AFR][1000 genomes]
rs244699	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs244701	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs244702	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs245458	0.97[ASN][1000 genomes]
rs245459	1.00[ASN][1000 genomes]
rs2652497	0.92[ASN][1000 genomes]
rs2662609	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs26970	0.94[ASN][1000 genomes]
rs26971	0.97[ASN][1000 genomes]
rs26972	0.97[ASN][1000 genomes]
rs26973	0.97[ASN][1000 genomes]
rs26974	1.00[ASN][1000 genomes]
rs26975	1.00[ASN][1000 genomes]
rs26977	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs27568	0.92[ASN][1000 genomes]
rs27724	1.00[ASN][1000 genomes]
rs27937	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28017	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs32629	0.92[ASN][1000 genomes]
rs36644	0.91[EUR][1000 genomes]
rs36646	0.85[ASN][1000 genomes]
rs36647	0.86[ASN][1000 genomes]
rs375523	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs378828	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3846534	0.88[YRI][hapmap]
rs393809	0.86[ASN][1000 genomes]
rs40622	0.83[ASN][1000 genomes]
rs420498	0.86[ASN][1000 genomes]
rs42317	0.86[ASN][1000 genomes]
rs435805	0.97[ASN][1000 genomes]
rs445309	1.00[ASN][1000 genomes]
rs60482268	0.83[AFR][1000 genomes]
rs696190	0.95[ASN][1000 genomes]
rs696191	0.95[ASN][1000 genomes]
rs697086	0.94[ASN][1000 genomes]
rs697136	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs697137	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs702596	0.95[ASN][1000 genomes]
rs702597	0.95[ASN][1000 genomes]
rs702598	0.90[ASN][1000 genomes]
rs72758120	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs834934	0.95[ASN][1000 genomes]
rs834936	0.95[ASN][1000 genomes]
rs835232	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3489100	chr5:57545689-57669673	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	esv3489101	chr5:57545689-57669673	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv4842	chr5:57653257-57694850	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57661600-57664000	Enhancers	Fetal Heart	heart
2	chr5:57661800-57662600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr5:57661800-57662600	Enhancers	Skeletal Muscle Female	skeletal muscle
4	chr5:57661800-57663000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr5:57662400-57662800	Enhancers	Adipose Nuclei	Adipose
6	chr5:57662400-57663000	Enhancers	HSMMtube	muscle

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