Variant report

Variant	rs1976790
Chromosome Location	chr3:56028135-56028136
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11707255	0.85[ASN][1000 genomes]
rs11709347	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11709483	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11713228	0.94[ASN][1000 genomes]
rs11714345	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11717188	0.84[ASN][1000 genomes]
rs11720792	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11917737	0.85[ASN][1000 genomes]
rs11923626	0.81[ASN][1000 genomes]
rs12233468	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13073082	0.81[ASN][1000 genomes]
rs13077670	0.94[ASN][1000 genomes]
rs13084391	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13087971	0.85[ASN][1000 genomes]
rs13097006	0.82[ASN][1000 genomes]
rs1379720	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1458056	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1458059	0.85[ASN][1000 genomes]
rs1812146	0.85[ASN][1000 genomes]
rs1914864	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1976791	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2125244	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34851422	0.85[ASN][1000 genomes]
rs34917685	0.94[ASN][1000 genomes]
rs4974151	0.81[ASN][1000 genomes]
rs4974153	0.85[ASN][1000 genomes]
rs6445762	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6806267	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6806432	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs732254	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs734941	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7641427	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs897964	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs922003	0.85[ASN][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	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	nsv1009709	chr3:56000827-56294945	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr3:56021400-56028200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr3:56021400-56034800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:56022600-56028200	Weak transcription	Fetal Kidney	kidney
4	chr3:56023400-56032400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr3:56023600-56028200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr3:56023600-56034600	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr3:56023800-56032600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr3:56025000-56029800	Weak transcription	Ovary	ovary
9	chr3:56028000-56028400	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr3:56028000-56028600	Enhancers	HUES48 Cell Line	embryonic stem cell

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