Variant report

Variant	rs4961633
Chromosome Location	chr9:18312578-18312579
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10113897	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10115400	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10115405	0.83[ASN][1000 genomes]
rs10117176	0.90[ASN][1000 genomes]
rs10119710	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10124318	0.87[ASN][1000 genomes]
rs10125689	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10217257	1.00[ASN][1000 genomes]
rs10738507	0.90[ASN][1000 genomes]
rs10810954	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10810955	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10810956	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10963573	0.90[ASN][1000 genomes]
rs10963577	0.94[ASN][1000 genomes]
rs12339435	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12349149	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12555902	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2226019	0.84[EUR][1000 genomes]
rs28513111	0.88[ASN][1000 genomes]
rs35016784	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3924761	0.88[ASN][1000 genomes]
rs4268217	0.90[ASN][1000 genomes]
rs4382567	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4395986	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4436218	0.95[ASN][1000 genomes]
rs4439225	0.89[ASN][1000 genomes]
rs4524897	0.96[ASN][1000 genomes]
rs4526458	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4554575	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4582650	0.94[ASN][1000 genomes]
rs4606157	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4961461	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4961634	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4961635	0.86[ASN][1000 genomes]
rs7023546	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7024310	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7036384	0.90[ASN][1000 genomes]
rs7038607	0.87[ASN][1000 genomes]
rs7045652	0.89[ASN][1000 genomes]
rs7855772	0.92[ASN][1000 genomes]
rs7856108	0.83[ASN][1000 genomes]
rs9298791	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9792562	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831522	chr9:18231982-18459492	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv491807	chr9:18243672-19009770	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	esv2764161	chr9:18247433-18443060	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv892684	chr9:18261485-18401585	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv892686	chr9:18273100-18328341	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv525659	chr9:18288212-19009041	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv1019127	chr9:18288271-18996288	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
8	nsv430001	chr9:18301116-18346392	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv982617	chr9:18303073-18318205	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
10	nsv892687	chr9:18303691-18430297	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv525743	chr9:18312578-18359014	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4961633	IFNA13	cis	parietal	SCAN
rs4961633	SNAPC3	cis	cerebellum	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:18305400-18315600	Weak transcription	Gastric	stomach
2	chr9:18306000-18315200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:18306000-18315200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr9:18311400-18312800	Enhancers	Fetal Heart	heart
5	chr9:18312400-18312800	Enhancers	Fetal Lung	lung

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