Variant report

Variant	rs12906499
Chromosome Location	chr15:62122798-62122799
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs17205183	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17238245	0.86[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap]
rs17303989	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs28814609	0.85[JPT][hapmap]
rs4774423	0.85[ASN][1000 genomes]
rs725174	0.85[JPT][hapmap]
rs8042267	0.85[JPT][hapmap]
rs9920006	0.85[JPT][hapmap]
rs9920256	0.85[JPT][hapmap]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs12906499	VPS13C	cis	cerebellum	SCAN
rs12906499	RORA	cis	parietal	SCAN
rs12906499	USP3	cis	cerebellum	SCAN
rs12906499	HERC1	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:62121800-62126600	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr15:62122000-62123000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:62122400-62124200	Enhancers	Primary hematopoietic stem cells	blood
4	chr15:62122600-62123000	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr15:62122600-62123000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr15:62122600-62123800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr15:62122600-62124200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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