Variant report

Variant	rs17191861
Chromosome Location	chr9:13925424-13925425
allele	A/T
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]
rs10113975	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10114117	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10116057	1.00[ASN][1000 genomes]
rs10117199	0.91[EUR][1000 genomes]
rs10118307	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10120298	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10120471	1.00[ASN][1000 genomes]
rs10120716	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10120720	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10121526	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10121771	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10123356	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10124185	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10961293	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10961299	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10961302	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12171725	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12335400	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12339494	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12341163	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12341611	1.00[ASN][1000 genomes]
rs12342217	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12349345	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12349396	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12352669	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17192270	1.00[ASN][1000 genomes]
rs17224436	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17224925	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17277062	1.00[ASN][1000 genomes]
rs17277138	1.00[ASN][1000 genomes]
rs17277411	1.00[ASN][1000 genomes]
rs1923350	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1923351	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2382424	1.00[ASN][1000 genomes]
rs2382429	1.00[ASN][1000 genomes]
rs28400408	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28564078	1.00[ASN][1000 genomes]
rs28565455	1.00[ASN][1000 genomes]
rs28679328	1.00[ASN][1000 genomes]
rs28890298	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2890975	1.00[ASN][1000 genomes]
rs55964819	1.00[ASN][1000 genomes]
rs56001972	1.00[ASN][1000 genomes]
rs56021345	1.00[ASN][1000 genomes]
rs56045419	1.00[ASN][1000 genomes]
rs56241626	1.00[ASN][1000 genomes]
rs56333536	1.00[ASN][1000 genomes]
rs56390403	1.00[ASN][1000 genomes]
rs62533692	1.00[ASN][1000 genomes]
rs62533694	1.00[ASN][1000 genomes]
rs62533704	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7032721	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7032794	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7033235	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7048311	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7861483	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7874947	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9696661	0.80[AMR][1000 genomes];1.00[ASN][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	nsv1022001	chr9:13717736-13983738	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1033764	chr9:13764918-14226168	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv613635	chr9:13893246-13961462	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17191861	SNAPC3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:13916000-13932800	Weak transcription	Psoas Muscle	Psoas
2	chr9:13924200-13938000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr9:13924800-13932400	Weak transcription	Fetal Muscle Leg	muscle

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