Variant report

Variant	rs9472403
Chromosome Location	chr6:44871407-44871408
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1041333	0.88[EUR][1000 genomes]
rs10948186	0.89[EUR][1000 genomes]
rs10948187	0.90[EUR][1000 genomes]
rs10948190	0.89[EUR][1000 genomes]
rs10948194	0.89[EUR][1000 genomes]
rs10948195	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12191518	0.89[EUR][1000 genomes]
rs1293467	0.80[EUR][1000 genomes]
rs1293598	0.91[EUR][1000 genomes]
rs1329716	0.85[EUR][1000 genomes]
rs1360196	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1576382	0.89[EUR][1000 genomes]
rs1854547	0.90[EUR][1000 genomes]
rs1935551	0.88[EUR][1000 genomes]
rs1980265	0.86[EUR][1000 genomes]
rs2145826	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2396370	0.89[EUR][1000 genomes]
rs2396371	0.88[EUR][1000 genomes]
rs2396373	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3778507	0.89[EUR][1000 genomes]
rs3799967	0.88[EUR][1000 genomes]
rs3799968	0.88[EUR][1000 genomes]
rs3799971	0.89[EUR][1000 genomes]
rs3799978	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3846896	0.91[EUR][1000 genomes]
rs494982	0.87[EUR][1000 genomes]
rs57020561	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs636845	0.87[EUR][1000 genomes]
rs6458415	0.94[EUR][1000 genomes]
rs6903576	0.91[EUR][1000 genomes]
rs6904015	0.88[EUR][1000 genomes]
rs6910294	0.88[EUR][1000 genomes]
rs6910749	0.81[EUR][1000 genomes]
rs6919485	0.88[EUR][1000 genomes]
rs6923519	0.93[EUR][1000 genomes]
rs6940547	0.82[EUR][1000 genomes]
rs7754698	0.87[EUR][1000 genomes]
rs929614	0.81[EUR][1000 genomes]
rs9296448	0.81[EUR][1000 genomes]
rs9349303	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9357459	0.88[EUR][1000 genomes]
rs9357464	0.89[EUR][1000 genomes]
rs9367208	0.89[EUR][1000 genomes]
rs9367211	0.92[EUR][1000 genomes]
rs9369512	0.86[EUR][1000 genomes]
rs9369513	0.88[EUR][1000 genomes]
rs9369514	0.91[EUR][1000 genomes]
rs9369515	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9369516	0.90[EUR][1000 genomes]
rs9369523	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9381359	0.85[EUR][1000 genomes]
rs9395051	0.90[EUR][1000 genomes]
rs9395055	0.94[EUR][1000 genomes]
rs9463054	0.89[EUR][1000 genomes]
rs9463055	0.88[EUR][1000 genomes]
rs9472383	0.88[EUR][1000 genomes]
rs9472418	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs976699	0.89[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	nsv885861	chr6:44837356-45043618	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1033815	chr6:44845514-44938799	Enhancers Strong transcription Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv5286	chr6:44865290-44909915	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9472403	SUPT3H	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:44859200-44889400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr6:44862600-44889400	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr6:44864800-44888400	Weak transcription	Primary T cells from cord blood	blood
4	chr6:44866600-44879600	Weak transcription	Pancreas	Pancrea
5	chr6:44868000-44874600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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