Variant report

Variant	rs6438476
Chromosome Location	chr3:118618860-118618861
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12497274	0.82[AMR][1000 genomes]
rs13090692	0.84[AMR][1000 genomes]
rs1521292	0.96[AMR][1000 genomes]
rs1521296	0.95[ASN][1000 genomes]
rs1521299	0.95[ASN][1000 genomes]
rs251456	0.80[JPT][hapmap]
rs2573192	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35872	0.92[CHD][hapmap];0.93[JPT][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap]
rs35874	0.92[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap]
rs6764143	0.96[AMR][1000 genomes]
rs6789125	0.96[AMR][1000 genomes]
rs6792206	0.84[AMR][1000 genomes]
rs6794562	0.95[ASN][1000 genomes]
rs859021	0.84[CHB][hapmap];0.92[JPT][hapmap]
rs962115	0.96[AMR][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	esv3487859	chr3:118570588-119419623	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv3487860	chr3:118570588-119419623	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6438476	FBXO40	cis	parietal	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:118604000-118621400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr3:118604200-118621400	Weak transcription	Brain Angular Gyrus	brain
3	chr3:118604400-118620000	Weak transcription	Brain Anterior Caudate	brain
4	chr3:118604400-118621400	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:118604400-118621400	Weak transcription	Brain Substantia Nigra	brain
6	chr3:118608400-118621400	Weak transcription	Brain Cingulate Gyrus	brain
7	chr3:118611600-118621000	Weak transcription	Ovary	ovary
8	chr3:118612200-118625600	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr3:118613800-118621000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr3:118614000-118619000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr3:118614000-118619800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr3:118614200-118620200	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr3:118614200-118625000	Weak transcription	Aorta	Aorta
14	chr3:118618200-118623400	Strong transcription	Brain Hippocampus Middle	brain

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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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