Variant report

Variant	rs56022259
Chromosome Location	chr3:142809578-142809579
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:142805513..142808227-chr3:142808677..142811250,2	K562	blood:
2	chr3:142808907..142811518-chr3:142836983..142839712,2	K562	blood:
3	chr3:142752666..142754615-chr3:142809170..142812042,2	K562	blood:

Variant related genes	Relation type
ENSG00000163714	Chromatin interaction
ENSG00000175040	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11914346	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11924590	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11925953	0.80[EUR][1000 genomes]
rs11926643	0.92[EUR][1000 genomes]
rs11928485	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13327838	0.92[EUR][1000 genomes]
rs1531139	0.91[EUR][1000 genomes]
rs2353403	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2353404	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs41374546	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55644607	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55874224	0.85[EUR][1000 genomes]
rs56216546	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56407378	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57654114	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58124018	0.88[ASN][1000 genomes]
rs62276932	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62276933	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73157700	0.80[EUR][1000 genomes]
rs73867496	0.86[ASN][1000 genomes]
rs936198	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9834271	0.91[EUR][1000 genomes]
rs9846508	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877562	chr3:142573789-142846370	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	esv2757893	chr3:142720230-142962932	Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	esv2759183	chr3:142720230-142964373	Strong transcription Weak transcription Enhancers Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv591921	chr3:142762487-142841740	Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142807800-142811000	Weak transcription	K562	blood
2	chr3:142809000-142810200	Enhancers	Fetal Brain Male	brain
3	chr3:142809200-142809600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr3:142809200-142809800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr3:142809200-142809800	Enhancers	HSMM	muscle
6	chr3:142809200-142809800	Enhancers	HSMMtube	muscle
7	chr3:142809200-142810200	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr3:142809400-142809600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr3:142809400-142809600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr3:142809400-142809800	Enhancers	Brain Anterior Caudate	brain
11	chr3:142809400-142809800	Enhancers	Fetal Muscle Trunk	muscle
12	chr3:142809400-142809800	Enhancers	Psoas Muscle	Psoas
13	chr3:142809400-142810400	Enhancers	Fetal Muscle Leg	muscle

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