Variant report

Variant	rs9986400
Chromosome Location	chr6:73590251-73590252
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs12208622	0.94[ASW][hapmap];0.82[CEU][hapmap];0.83[CHB][hapmap];0.84[CHD][hapmap];0.91[MEX][hapmap]
rs12211841	0.94[ASW][hapmap];0.90[CEU][hapmap];0.81[CHD][hapmap];0.81[YRI][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2796003	0.84[CHB][hapmap]
rs2840796	0.86[CHB][hapmap]
rs7739065	0.80[AMR][1000 genomes]
rs9283796	0.95[CEU][hapmap];0.87[CHB][hapmap];0.89[CHD][hapmap];0.83[JPT][hapmap];0.96[TSI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9442863	0.81[TSI][hapmap]
rs9446789	0.82[CHB][hapmap];0.84[CHD][hapmap];0.82[MEX][hapmap];0.84[AMR][1000 genomes]
rs9446790	0.86[CHB][hapmap];0.81[AMR][1000 genomes]
rs9986437	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830691	chr6:73530978-73743648	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
2	nsv470834	chr6:73546750-73596605	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
3	nsv886155	chr6:73551937-73649330	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv886156	chr6:73578415-73603675	Weak transcription Enhancers Strong transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9986400	BAI3	cis	cerebellum	SCAN
rs9986400	RIMS1	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:73575800-73595400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr6:73580000-73595400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr6:73585000-73592600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr6:73590200-73591800	Strong transcription	GM12878-XiMat	blood

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Input of quick search could be:

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

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