Variant report

Variant	rs7648805
Chromosome Location	chr3:88003812-88003813
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10511136	0.83[JPT][hapmap]
rs11128011	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11720863	0.84[ASN][1000 genomes]
rs12490415	0.89[EUR][1000 genomes]
rs13075165	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13075569	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13098473	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13320429	0.88[EUR][1000 genomes]
rs13326965	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1393916	0.87[EUR][1000 genomes]
rs1393918	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1393919	0.86[ASN][1000 genomes]
rs1393920	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1431150	0.86[ASN][1000 genomes]
rs1472688	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1560450	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1604697	0.87[EUR][1000 genomes]
rs17549345	0.83[JPT][hapmap]
rs1818163	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs1821027	0.88[EUR][1000 genomes]
rs1827534	0.83[ASN][1000 genomes]
rs1847305	0.85[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs1960034	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1975095	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs1983075	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs1991658	0.83[ASN][1000 genomes]
rs2195714	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2195715	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2195716	0.87[EUR][1000 genomes]
rs2344185	0.83[JPT][hapmap]
rs2915278	0.83[ASN][1000 genomes]
rs2915280	0.86[ASN][1000 genomes]
rs2915288	0.87[EUR][1000 genomes]
rs2915292	0.89[EUR][1000 genomes]
rs2915294	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2919260	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2919263	0.83[ASN][1000 genomes]
rs2919264	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2919267	0.87[EUR][1000 genomes]
rs2919274	0.83[ASN][1000 genomes]
rs2938275	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4333109	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs57019520	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs60635211	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs6551257	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs6551259	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6775200	0.83[AFR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6785104	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6807414	0.86[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6807548	0.90[EUR][1000 genomes]
rs73141250	0.80[EUR][1000 genomes]
rs7426476	0.84[EUR][1000 genomes]
rs7434013	0.88[EUR][1000 genomes]
rs747821	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs749160	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7614415	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7629536	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7635463	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7647245	0.88[EUR][1000 genomes]
rs923473	0.85[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs923474	0.86[EUR][1000 genomes]
rs9809386	0.87[EUR][1000 genomes]
rs9816966	0.90[EUR][1000 genomes]
rs9829833	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs9830274	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs9844893	0.87[EUR][1000 genomes]
rs9846032	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9852305	0.85[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9852704	0.83[JPT][hapmap]
rs9856604	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9859034	0.81[JPT][hapmap]
rs9861035	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9872577	0.87[EUR][1000 genomes]
rs9917646	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009981	chr3:87821573-88003956	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv536634	chr3:87821573-88003956	Bivalent/Poised TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv834758	chr3:87867363-88014975	Strong transcription Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1007981	chr3:87949316-88004036	Genic enhancers Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv527929	chr3:87949733-88003812	ZNF genes & repeats Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv877146	chr3:87983962-88159835	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	12 gene(s)	inside rSNPs	diseases
7	nsv818157	chr3:88001713-88003812	Strong transcription Weak transcription	n/a	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7648805	HTR1F	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:87995600-88011000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr3:88000000-88005000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr3:88003000-88006200	Weak transcription	Primary hematopoietic stem cells	blood

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