Variant report

Variant	rs10463584
Chromosome Location	chr5:107255869-107255870
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs12514884	0.93[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12515449	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12518124	1.00[CEU][hapmap];0.94[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9784679	0.82[CHB][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	nsv830440	chr5:107074116-107278905	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv882682	chr5:107213361-107458336	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10463584	FBXL17	Cis_1M	lymphoblastoid	RTeQTL
rs10463584	CASK	trans	lymphoblastoid	seeQTL
rs10463584	MYO6	trans	lymphoblastoid	seeQTL

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107248600-107258600	Weak transcription	Left Ventricle	heart
2	chr5:107251600-107261000	Weak transcription	Aorta	Aorta
3	chr5:107253800-107257000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr5:107254000-107258000	Weak transcription	Thymus	Thymus
5	chr5:107254000-107259000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr5:107254000-107262600	Weak transcription	Pancreas	Pancrea
7	chr5:107254200-107258200	Weak transcription	Primary T cells from cord blood	blood
8	chr5:107254600-107257400	Weak transcription	Fetal Thymus	thymus
9	chr5:107254600-107258400	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr5:107255200-107259600	Weak transcription	Dnd41	blood
11	chr5:107255400-107256400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr5:107255600-107256000	Flanking Active TSS	GM12878-XiMat	blood
13	chr5:107255800-107256000	Enhancers	Fetal Brain Male	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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