Variant report

Variant	rs4877768
Chromosome Location	chr9:86073627-86073628
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11787686	0.92[CEU][hapmap]
rs13301440	0.83[AMR][1000 genomes]
rs17086317	0.92[CEU][hapmap];0.81[MEX][hapmap]
rs17086319	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2375927	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35161622	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35928246	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4014024	0.82[MEX][hapmap]
rs4877770	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4877773	0.93[ASW][hapmap];0.85[CEU][hapmap];0.83[LWK][hapmap];0.82[MKK][hapmap];0.82[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs4877774	0.85[CEU][hapmap];0.82[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs4877775	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs4877776	0.85[CEU][hapmap];0.82[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs4877777	0.93[ASW][hapmap];0.85[CEU][hapmap];0.83[LWK][hapmap];0.82[MKK][hapmap];0.82[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs5014092	0.92[CEU][hapmap]
rs5014093	0.92[CEU][hapmap];0.86[MEX][hapmap]
rs5014094	0.92[CEU][hapmap];0.86[MEX][hapmap]
rs5014095	0.88[CEU][hapmap]
rs7020613	0.92[CEU][hapmap]
rs7026481	0.92[CEU][hapmap];0.86[MEX][hapmap]
rs7026525	0.92[CEU][hapmap]
rs7039039	0.85[EUR][1000 genomes]
rs7851397	0.85[CEU][hapmap];0.82[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs7855690	0.85[CEU][hapmap];0.84[AMR][1000 genomes]
rs7869397	0.93[ASW][hapmap];0.85[CEU][hapmap];0.80[LWK][hapmap];0.82[MKK][hapmap];0.80[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs7872891	0.93[ASW][hapmap];0.85[CEU][hapmap];0.83[LWK][hapmap];0.82[MKK][hapmap];0.80[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs7873016	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893512	chr9:86022215-86323309	Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4877768	SLC28A3	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:86056000-86085200	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr9:86059600-86081000	Weak transcription	Fetal Brain Male	brain
3	chr9:86061200-86081400	Weak transcription	HepG2	liver
4	chr9:86065800-86078800	Weak transcription	Left Ventricle	heart
5	chr9:86066600-86074200	Weak transcription	Pancreas	Pancrea
6	chr9:86072400-86075200	Enhancers	Rectal Mucosa Donor 31	rectum
7	chr9:86072400-86076000	Weak transcription	Stomach Smooth Muscle	stomach
8	chr9:86072600-86073800	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr9:86073000-86075200	Enhancers	Sigmoid Colon	Sigmoid Colon
10	chr9:86073400-86074200	Weak transcription	Spleen	Spleen

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