Variant report

Variant	rs12437724
Chromosome Location	chr15:54853725-54853726
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10152571	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10468008	0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11071087	1.00[CHB][hapmap];0.98[CHD][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.81[TSI][hapmap];0.85[ASN][1000 genomes]
rs11071088	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11639005	0.91[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11639014	1.00[CHB][hapmap];0.98[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[TSI][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12443186	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12900512	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12908706	0.92[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap]
rs12909682	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.98[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.84[MKK][hapmap];0.85[TSI][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12910464	0.81[ASN][1000 genomes]
rs12914472	0.87[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.81[YRI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12916626	0.95[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap]
rs16974753	0.95[CHB][hapmap];0.89[JPT][hapmap]
rs16974861	0.84[CEU][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1818705	0.96[CEU][hapmap];0.95[CHB][hapmap];0.81[GIH][hapmap];0.90[JPT][hapmap];0.85[TSI][hapmap];0.81[ASN][1000 genomes]
rs1851001	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1851007	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1851008	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1973747	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2056341	0.83[EUR][1000 genomes]
rs2056342	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap]
rs2553222	0.84[CEU][hapmap];0.81[CHB][hapmap];0.80[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2553223	0.84[CEU][hapmap];0.82[CHB][hapmap];0.84[GIH][hapmap];0.80[JPT][hapmap];0.80[TSI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2553227	0.84[AMR][1000 genomes]
rs2681954	0.82[GIH][hapmap]
rs34301708	0.85[ASN][1000 genomes]
rs589611	0.95[CHB][hapmap];0.86[CHD][hapmap];0.81[GIH][hapmap];0.90[JPT][hapmap];0.94[MEX][hapmap]
rs6493690	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7163424	0.84[CEU][hapmap];0.85[CHB][hapmap];0.89[GIH][hapmap];0.80[JPT][hapmap];0.80[TSI][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs746321	0.84[AMR][1000 genomes]
rs8023595	0.96[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.83[TSI][hapmap]
rs8023918	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap]
rs8028630	0.82[GIH][hapmap];0.83[MEX][hapmap];0.84[AMR][1000 genomes]
rs8040060	0.80[CEU][hapmap];0.80[JPT][hapmap]
rs8040774	0.80[CEU][hapmap];0.80[JPT][hapmap]
rs8041282	0.92[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.85[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8042341	0.92[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9302181	0.95[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[TSI][hapmap];0.83[ASN][1000 genomes]
rs939390	0.84[AMR][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	nsv817539	chr15:54132584-55095235	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1038660	chr15:54756184-55039913	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv904236	chr15:54820897-54912439	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12437724	UNC13C	Cis_1M	lymphoblastoid	RTeQTL
rs12437724	KIAA1370	cis	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:54811000-54869600	Weak transcription	Aorta	Aorta
2	chr15:54839800-54858800	Weak transcription	Fetal Lung	lung
3	chr15:54852000-54855600	Weak transcription	Primary hematopoietic stem cells	blood
4	chr15:54852400-54855600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr15:54852600-54856000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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