Variant report

Variant	rs11876006
Chromosome Location	chr18:24752893-24752894
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1075311	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11083193	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1155333	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12971155	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1426869	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1426872	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1559880	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1863630	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2081641	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2162412	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2339328	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4800789	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4800793	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4800794	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6508468	0.81[EUR][1000 genomes]
rs7245048	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8088410	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs8088724	0.83[AFR][1000 genomes]
rs8091366	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8096058	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9646564	0.84[EUR][1000 genomes]
rs9945788	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9949654	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9958569	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9961184	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9961359	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9963727	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9964571	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9966600	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067103	chr18:24524011-24760469	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv543668	chr18:24524011-24760469	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv909473	chr18:24655235-24792075	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv909474	chr18:24683823-24832023	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv909475	chr18:24687324-24776226	Bivalent Enhancer Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv530515	chr18:24704459-24883897	Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv909476	chr18:24722839-24779601	Enhancers Bivalent Enhancer Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	esv1810563	chr18:24727747-24773141	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	esv3337986	chr18:24737003-24758526	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11876006	CHST9	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:24744200-24755200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr18:24745400-24754800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr18:24745400-24756200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr18:24747600-24755200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr18:24750400-24754800	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr18:24751400-24754600	Enhancers	Pancreatic Islets	Pancreatic Islet

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