Variant report

Variant	rs7639013
Chromosome Location	chr3:55925391-55925392
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs12108171	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12633538	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12636793	0.82[AMR][1000 genomes]
rs1458066	0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs17056053	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs17056061	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs17056065	0.89[ASN][1000 genomes]
rs17056081	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17056090	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17056093	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs17056098	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1902861	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs55673265	0.86[AFR][1000 genomes]
rs55675302	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs55682897	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs55724092	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55967115	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55971093	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62253660	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62253661	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62253664	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62253666	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62253667	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62253668	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62253669	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62253670	0.82[EUR][1000 genomes]
rs62255831	0.82[AMR][1000 genomes]
rs62255832	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs62255835	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs62256771	0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs62256772	0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs62256773	0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs62256774	0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs62256778	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6445755	0.89[ASN][1000 genomes]
rs6763408	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6766607	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs73073394	0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs73075332	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73075334	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs733509	0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7609626	0.87[CEU][hapmap];1.00[CHB][hapmap];0.89[GIH][hapmap]
rs7617166	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs7618265	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7636943	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs7649504	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9815155	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv876815	chr3:55895409-55979964	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	2 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	chr3:55915400-55925800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr3:55920000-55931400	Weak transcription	Spleen	Spleen
3	chr3:55921200-55927200	Weak transcription	HMEC	breast
4	chr3:55921600-55927000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:55923000-55929600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:55923400-55929000	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr3:55923600-55925800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:55923600-55929800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:55925000-55926400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr3:55925200-55925400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr3:55925200-55925800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr3:55925200-55927600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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