Variant report

Variant	rs1040977
Chromosome Location	chr9:95554873-95554874
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10821001	0.80[EUR][1000 genomes]
rs10821003	0.80[EUR][1000 genomes]
rs10821004	0.80[EUR][1000 genomes]
rs10821005	0.80[EUR][1000 genomes]
rs10821014	0.80[EUR][1000 genomes]
rs10992420	0.80[EUR][1000 genomes]
rs10992422	0.80[EUR][1000 genomes]
rs10992447	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10992448	0.80[EUR][1000 genomes]
rs10992453	0.80[EUR][1000 genomes]
rs10992460	0.82[EUR][1000 genomes]
rs10992461	0.82[EUR][1000 genomes]
rs11533010	0.80[EUR][1000 genomes]
rs12236754	0.80[EUR][1000 genomes]
rs12238691	0.80[EUR][1000 genomes]
rs12685358	0.80[EUR][1000 genomes]
rs12686771	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1853428	0.92[EUR][1000 genomes]
rs1974004	0.92[EUR][1000 genomes]
rs2146848	0.84[EUR][1000 genomes]
rs2181584	0.80[EUR][1000 genomes]
rs2277169	0.84[EUR][1000 genomes]
rs3739605	0.80[EUR][1000 genomes]
rs56311406	0.82[EUR][1000 genomes]
rs57737182	0.82[EUR][1000 genomes]
rs58952648	0.80[EUR][1000 genomes]
rs60498616	0.80[EUR][1000 genomes]
rs61628776	0.80[EUR][1000 genomes]
rs7031163	0.80[EUR][1000 genomes]
rs72756476	0.81[EUR][1000 genomes]
rs753804	0.80[EUR][1000 genomes]
rs7860628	0.82[EUR][1000 genomes]
rs7863741	0.83[EUR][1000 genomes]
rs7869603	0.80[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	nsv430081	chr9:95502571-95568110	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv831654	chr9:95542920-95720961	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv982595	chr9:95551536-95561640	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1040977	CENPP	cis	multi-tissue	Pritchard

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95541400-95558600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:95553200-95556600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr9:95553600-95557400	Weak transcription	Liver	Liver

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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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