Variant report

Variant	rs58408429
Chromosome Location	chr4:57769824-57769825
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:57766086..57769107-chr4:57769697..57772712,3	K562	blood:
2	chr4:57767984..57770283-chr4:57774532..57776047,2	MCF-7	breast:
3	chr4:57766348..57770252-chr4:57770939..57776427,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000084093	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs12645070	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17081933	0.86[EUR][1000 genomes]
rs17081935	0.86[EUR][1000 genomes]
rs17087335	0.85[EUR][1000 genomes]
rs2227901	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3796529	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4412049	0.83[AMR][1000 genomes]
rs55762216	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55879786	0.83[EUR][1000 genomes]
rs56155140	0.86[EUR][1000 genomes]
rs56162812	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs56281640	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57265257	0.85[EUR][1000 genomes]
rs58548607	0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs59713092	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs60796028	0.80[ASN][1000 genomes]
rs6554401	0.85[EUR][1000 genomes]
rs66790703	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67043033	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6852182	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6852997	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6853156	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72606404	0.85[EUR][1000 genomes]
rs72627508	0.85[EUR][1000 genomes]
rs72627509	0.83[EUR][1000 genomes]
rs73165958	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73165962	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs73165963	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs73165969	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7658601	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7665147	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7687767	0.86[EUR][1000 genomes]
rs781656	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs781657	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs781658	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs781663	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][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	nsv868815	chr4:57114268-58084688	Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
2	nsv1012287	chr4:57652778-57853485	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv1012125	chr4:57668229-57865803	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv822562	chr4:57768655-57779715	Active TSS Enhancers Genic enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	10 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	chr4:57761600-57773000	Weak transcription	Right Atrium	heart
2	chr4:57768600-57770200	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr4:57768800-57771000	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr4:57769000-57770200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr4:57769000-57770200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr4:57769000-57770200	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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