Variant report

Variant	rs775111
Chromosome Location	chr20:15990784-15990785
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11696334	0.84[CEU][hapmap]
rs1237878	0.84[CEU][hapmap]
rs12479985	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6080100	0.84[CEU][hapmap]
rs7509422	0.96[CEU][hapmap];0.81[TSI][hapmap];0.87[EUR][1000 genomes]
rs775108	1.00[CEU][hapmap];0.90[CHB][hapmap];0.91[CHD][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.95[TSI][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs775117	0.92[CEU][hapmap];0.85[TSI][hapmap];0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869328	chr20:15325423-16213898	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv3447866	chr20:15799286-16115291	Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1065548	chr20:15971797-16023086	Enhancers Weak transcription Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs775111	SNX5	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:15979000-16004200	Weak transcription	Primary B cells from peripheral blood	blood
2	chr20:15986200-15990800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr20:15987000-15990800	Weak transcription	Brain Germinal Matrix	brain
4	chr20:15987000-15991400	Weak transcription	Fetal Brain Female	brain
5	chr20:15987400-15991800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr20:15987400-15995200	Strong transcription	Primary B cells from cord blood	blood
7	chr20:15989400-15992000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr20:15990400-15990800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr20:15990600-15992200	Enhancers	Fetal Heart	heart

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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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