Variant report

Variant	rs1876276
Chromosome Location	chr12:62060104-62060105
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10506428	0.83[AFR][1000 genomes]
rs11174080	0.83[AFR][1000 genomes]
rs11174192	0.87[CEU][hapmap]
rs12423666	0.87[CEU][hapmap]
rs12424427	0.87[CEU][hapmap]
rs12424523	0.96[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12425635	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12582721	0.82[CEU][hapmap]
rs12809181	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12813362	0.85[CEU][hapmap]
rs12815579	0.87[CEU][hapmap]
rs12816044	0.87[CEU][hapmap];0.85[MEX][hapmap]
rs12818321	0.84[CHB][hapmap];0.88[JPT][hapmap]
rs12818949	0.87[CEU][hapmap]
rs12821294	0.87[CEU][hapmap]
rs12833305	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs1588054	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1605324	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17125406	0.87[CEU][hapmap]
rs2061206	0.87[CEU][hapmap]
rs34012846	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34677376	1.00[ASW][hapmap];0.84[CHB][hapmap];0.94[GIH][hapmap];0.87[JPT][hapmap];0.85[MEX][hapmap];0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs35846182	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4335596	0.87[CEU][hapmap];0.85[MEX][hapmap]
rs4763158	0.87[CEU][hapmap]
rs6581422	0.87[CEU][hapmap]
rs71465106	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs71465109	0.86[AMR][1000 genomes]
rs7302068	0.83[AFR][1000 genomes]
rs7316414	0.83[AFR][1000 genomes]
rs7485627	0.83[MEX][hapmap]
rs7488706	0.95[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7488978	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7954960	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs983765	0.87[CEU][hapmap]

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	nsv1042044	chr12:61256015-62196885	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1039741	chr12:62046850-62491052	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1876276	STAC3	cis	cerebellum	SCAN
rs1876276	IL23A	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:62060000-62060200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell

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