Variant report

Variant	rs1508908
Chromosome Location	chr5:57785241-57785242
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10037721	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10039062	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10052714	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10055153	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10056153	0.95[CHB][hapmap];0.92[JPT][hapmap]
rs10057028	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10063214	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10064698	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10064918	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10069804	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10069810	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10070522	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10070704	0.83[ASN][1000 genomes]
rs10472063	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1159072	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11748206	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11748233	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12186775	0.93[CEU][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13166524	0.83[ASN][1000 genomes]
rs13178332	0.92[CEU][hapmap]
rs1389308	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1508909	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1508921	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1559240	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1565729	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1858087	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2011644	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2029690	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2408929	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2662619	0.87[AFR][1000 genomes]
rs4551014	0.87[YRI][hapmap]
rs4700294	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4700295	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6450477	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6450479	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6450481	0.82[ASN][1000 genomes]
rs6862791	0.83[ASN][1000 genomes]
rs6872961	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6879314	0.92[CEU][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6886814	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6891070	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6892103	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6892457	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6894735	0.83[ASN][1000 genomes]
rs7704108	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7704785	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7708191	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7710737	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7721390	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7721538	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7722318	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7726376	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9292162	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9292164	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9292167	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs963989	0.92[CEU][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs966269	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs966270	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv598246	chr5:57777623-57785273	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1508908	GAPT	cis	Whole Blood	GTEx

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57773200-57785400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr5:57782800-57785400	Weak transcription	Primary B cells from cord blood	blood
3	chr5:57782800-57785400	Weak transcription	Primary B cells from peripheral blood	blood
4	chr5:57783000-57785800	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr5:57784800-57785800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr5:57784800-57786000	Enhancers	Monocytes-CD14+_RO01746	blood
7	chr5:57785000-57785400	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr5:57785000-57787000	Enhancers	Primary hematopoietic stem cells short term culture	blood

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