Variant report

Variant	rs57020561
Chromosome Location	chr6:44862734-44862735
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1041333	0.87[EUR][1000 genomes]
rs10948186	0.88[EUR][1000 genomes]
rs10948187	0.89[EUR][1000 genomes]
rs10948190	0.88[EUR][1000 genomes]
rs10948194	0.88[EUR][1000 genomes]
rs10948195	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12191518	0.88[EUR][1000 genomes]
rs12215252	0.81[AMR][1000 genomes]
rs1293598	0.90[EUR][1000 genomes]
rs1329716	0.84[EUR][1000 genomes]
rs1338907	0.81[AMR][1000 genomes]
rs1342640	0.81[AMR][1000 genomes]
rs1360196	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1576382	0.88[EUR][1000 genomes]
rs1854547	0.90[EUR][1000 genomes]
rs1935551	0.87[EUR][1000 genomes]
rs1980265	0.85[EUR][1000 genomes]
rs2145826	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs227837	0.82[AMR][1000 genomes]
rs227838	0.82[AMR][1000 genomes]
rs227841	0.81[AMR][1000 genomes]
rs227847	0.81[AMR][1000 genomes]
rs227848	0.81[AMR][1000 genomes]
rs227850	0.81[AMR][1000 genomes]
rs227855	0.81[AMR][1000 genomes]
rs2396370	0.88[EUR][1000 genomes]
rs2396371	0.87[EUR][1000 genomes]
rs2396373	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3778507	0.88[EUR][1000 genomes]
rs3799967	0.87[EUR][1000 genomes]
rs3799968	0.87[EUR][1000 genomes]
rs3799971	0.88[EUR][1000 genomes]
rs3799978	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3846896	0.90[EUR][1000 genomes]
rs494982	0.87[EUR][1000 genomes]
rs567054	0.81[EUR][1000 genomes]
rs636845	0.86[EUR][1000 genomes]
rs6458412	0.81[AMR][1000 genomes]
rs6458415	0.93[EUR][1000 genomes]
rs6903576	0.91[EUR][1000 genomes]
rs6904015	0.87[EUR][1000 genomes]
rs6910294	0.87[EUR][1000 genomes]
rs6919485	0.88[EUR][1000 genomes]
rs6923519	0.94[EUR][1000 genomes]
rs6940547	0.84[EUR][1000 genomes]
rs7754698	0.86[EUR][1000 genomes]
rs911524	0.81[AMR][1000 genomes]
rs9296448	0.82[EUR][1000 genomes]
rs9349303	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9357459	0.87[EUR][1000 genomes]
rs9357464	0.88[EUR][1000 genomes]
rs9367208	0.88[EUR][1000 genomes]
rs9367211	0.93[EUR][1000 genomes]
rs9369512	0.85[EUR][1000 genomes]
rs9369513	0.87[EUR][1000 genomes]
rs9369514	0.90[EUR][1000 genomes]
rs9369515	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9369516	0.89[EUR][1000 genomes]
rs9369523	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9381359	0.86[EUR][1000 genomes]
rs9395051	0.89[EUR][1000 genomes]
rs9395055	0.93[EUR][1000 genomes]
rs9463054	0.89[EUR][1000 genomes]
rs9463055	0.88[EUR][1000 genomes]
rs9472383	0.87[EUR][1000 genomes]
rs9472403	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9472418	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs976699	0.88[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	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs57020561	SUPT3H	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:44854600-44866200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:44859200-44889400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr6:44860800-44862800	Weak transcription	Fetal Heart	heart
4	chr6:44862600-44889400	Weak transcription	Primary T cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links