Variant report

Variant	rs10032372
Chromosome Location	chr4:62944634-62944635
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10006606	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10013024	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10017162	0.86[EUR][1000 genomes]
rs10023749	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10026213	0.84[ASN][1000 genomes]
rs10030005	0.87[EUR][1000 genomes]
rs10033565	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11131359	0.89[EUR][1000 genomes]
rs12508665	0.84[EUR][1000 genomes]
rs12509655	0.81[CHB][hapmap]
rs12642767	0.83[ASN][1000 genomes]
rs12715708	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13108623	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13131251	0.83[ASN][1000 genomes]
rs13138506	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17082585	0.84[EUR][1000 genomes]
rs2160498	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs2193121	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2193122	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2216198	0.85[EUR][1000 genomes]
rs2344677	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3922274	0.99[ASN][1000 genomes]
rs4397024	0.81[EUR][1000 genomes]
rs58634974	0.88[EUR][1000 genomes]
rs6551682	0.88[EUR][1000 genomes]
rs66917394	0.85[ASN][1000 genomes]
rs67603454	0.85[ASN][1000 genomes]
rs6822974	1.00[CEU][hapmap];0.86[CHB][hapmap];0.88[CHD][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6827266	0.86[CHB][hapmap];0.80[CHD][hapmap]
rs7664211	0.81[EUR][1000 genomes]
rs7667700	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7674516	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7696902	0.85[EUR][1000 genomes]
rs9991183	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][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	nsv1012574	chr4:62844264-62954187	Enhancers Weak transcription Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
2	nsv879078	chr4:62923797-63054757	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10032372	LPHN3	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62943400-62946000	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr4:62943400-62950800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr4:62943600-62945800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr4:62943600-62946400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr4:62943800-62945800	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr4:62943800-62945800	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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