Variant report

Variant	rs12377464
Chromosome Location	chr9:26681994-26681995
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10967460	0.83[AMR][1000 genomes]
rs10967477	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12375499	0.81[AMR][1000 genomes]
rs12380443	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13284705	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13284937	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13285927	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13286139	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13289000	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13289242	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13292094	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13292180	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13292559	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13294589	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13295668	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13295730	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13295742	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13298607	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1434480	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17755083	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1887224	0.83[AMR][1000 genomes]
rs35176178	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs36002225	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv995049	chr9:26162115-26760535	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv892854	chr9:26326100-26749094	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv892858	chr9:26609613-26783463	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv466330	chr9:26641557-26691668	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	lncRNA	n/a	inside rSNPs	diseases
5	nsv613939	chr9:26641557-26691668	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	lncRNA	n/a	inside rSNPs	diseases
6	nsv466331	chr9:26643035-26689442	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	lncRNA	n/a	inside rSNPs	diseases
7	nsv613940	chr9:26643035-26689442	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	lncRNA	n/a	inside rSNPs	diseases
8	nsv892859	chr9:26643035-26691668	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:26678600-26682800	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr9:26678800-26683000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr9:26679000-26682000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr9:26679000-26682000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr9:26679000-26683200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:26679000-26683200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr9:26679200-26685400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr9:26679200-26685400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr9:26680400-26687800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr9:26681000-26682000	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr9:26681400-26682000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr9:26681400-26683000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr9:26681600-26682200	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr9:26681800-26682000	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr9:26681800-26682000	Enhancers	HUES64 Cell Line	embryonic stem cell
16	chr9:26681800-26682000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

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