Variant report

Variant	rs4642010
Chromosome Location	chr20:23853181-23853182
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:23852729..23853709-chr9:66823514..66824015,2	MCF-7	breast:
2	chr20:23852729..23853709-chr9:66823512..66824018,2	MCF-7	breast:
3	chr20:23852729..23853229-chr20:26319433..26319936,2	MCF-7	breast:
4	chr11:62608849..62609515-chr20:23852729..23853229,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000133316	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11698737	0.85[EUR][1000 genomes]
rs11698834	0.86[EUR][1000 genomes]
rs11699452	0.86[EUR][1000 genomes]
rs11699520	0.86[EUR][1000 genomes]
rs2071444	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34269359	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35138163	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35275385	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35557175	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35722487	0.85[EUR][1000 genomes]
rs4322904	0.86[EUR][1000 genomes]
rs6036561	0.92[EUR][1000 genomes]
rs6049191	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6049196	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6049197	0.92[EUR][1000 genomes]
rs6132677	0.83[EUR][1000 genomes]
rs6132678	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6132679	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6138131	0.81[EUR][1000 genomes]
rs6138146	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6138148	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6138149	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6138150	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6138151	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6138152	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6138153	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6515431	0.83[EUR][1000 genomes]
rs6515432	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs66754062	0.86[EUR][1000 genomes]
rs67121560	0.86[EUR][1000 genomes]
rs8184710	0.81[EUR][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	nsv491876	chr20:23436633-24031374	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv833944	chr20:23806288-24021865	Bivalent Enhancer Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv585730	chr20:23809681-23862844	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23848200-23853400	Weak transcription	Thymus	Thymus
2	chr20:23848800-23860400	Enhancers	Fetal Thymus	thymus
3	chr20:23851200-23853200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr20:23851400-23859400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr20:23851800-23855400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr20:23852200-23854400	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr20:23852400-23854200	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr20:23852400-23854400	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr20:23852400-23864800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr20:23852800-23858200	Enhancers	Dnd41	blood
11	chr20:23853000-23853600	Enhancers	H1 Cell Line	embryonic stem cell
12	chr20:23853000-23855400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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