Variant report

Variant	rs13004923
Chromosome Location	chr2:99497561-99497562
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:99495810..99498238-chr2:99499497..99501291,2	MCF-7	breast:
2	chr2:99496861..99499359-chr2:99536872..99539467,2	K562	blood:

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10169003	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10172158	0.94[EUR][1000 genomes]
rs10181972	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10188156	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11123755	0.94[EUR][1000 genomes]
rs11123756	0.93[AFR][1000 genomes]
rs11887536	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11893888	0.89[EUR][1000 genomes]
rs12468024	0.94[EUR][1000 genomes]
rs12474283	0.83[EUR][1000 genomes]
rs12712035	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12712036	0.87[EUR][1000 genomes]
rs12712038	0.94[EUR][1000 genomes]
rs12712039	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs12712041	0.83[EUR][1000 genomes]
rs12712043	0.80[EUR][1000 genomes]
rs12992214	0.85[ASN][1000 genomes]
rs13004700	0.82[EUR][1000 genomes]
rs13011428	0.81[EUR][1000 genomes]
rs1356424	0.83[EUR][1000 genomes]
rs1568213	0.81[EUR][1000 genomes]
rs1581250	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1581251	0.94[EUR][1000 genomes]
rs1607256	0.80[EUR][1000 genomes]
rs1878585	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1949424	0.89[ASN][1000 genomes]
rs1962029	0.91[AFR][1000 genomes]
rs1983352	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2280256	0.86[EUR][1000 genomes]
rs4263159	0.91[EUR][1000 genomes]
rs4553869	0.93[AFR][1000 genomes]
rs4850888	0.90[EUR][1000 genomes]
rs4850889	0.83[EUR][1000 genomes]
rs4851162	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4851163	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4851167	0.94[EUR][1000 genomes]
rs4851170	0.94[EUR][1000 genomes]
rs4851171	0.94[EUR][1000 genomes]
rs4851173	0.83[EUR][1000 genomes]
rs4851177	0.84[EUR][1000 genomes]
rs6419564	0.84[EUR][1000 genomes]
rs6542838	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6542839	0.87[EUR][1000 genomes]
rs6542841	0.93[AFR][1000 genomes]
rs6542843	0.84[EUR][1000 genomes]
rs6704682	0.93[AFR][1000 genomes]
rs6711022	0.86[EUR][1000 genomes]
rs6713991	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6714243	0.94[EUR][1000 genomes]
rs6717372	0.92[EUR][1000 genomes]
rs6719634	0.87[EUR][1000 genomes]
rs6726156	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6739097	0.86[ASN][1000 genomes]
rs6739176	0.84[EUR][1000 genomes]
rs6739503	0.83[EUR][1000 genomes]
rs6752025	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7565510	0.89[AFR][1000 genomes]
rs7579189	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7593332	0.90[ASN][1000 genomes]
rs7608889	0.94[EUR][1000 genomes]
rs883773	0.93[AFR][1000 genomes]
rs925887	0.87[EUR][1000 genomes]
rs981601	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs981602	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]

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	nsv1011278	chr2:99280928-99638376	Weak transcription Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv535835	chr2:99280928-99638376	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:99485600-99499800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr2:99487600-99499400	Weak transcription	Gastric	stomach
3	chr2:99492000-99500400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr2:99496800-99501800	Enhancers	Esophagus	oesophagus
5	chr2:99497000-99497800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr2:99497200-99497600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
7	chr2:99497200-99497800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr2:99497200-99498400	Enhancers	NHEK	skin
9	chr2:99497200-99499400	Strong transcription	Cortex derived primary cultured neurospheres	brain
10	chr2:99497400-99498200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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