Variant report

Variant	rs4985540
Chromosome Location	chr16:70656961-70656962
allele	A/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11865702	0.86[ASN][1000 genomes]
rs12051132	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12596022	0.87[ASN][1000 genomes]
rs12596821	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12596851	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12596861	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12596931	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12599245	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12708905	0.91[ASN][1000 genomes]
rs12917749	0.88[ASN][1000 genomes]
rs12924106	0.91[ASN][1000 genomes]
rs12928124	0.85[ASN][1000 genomes]
rs12932251	0.96[EUR][1000 genomes]
rs13330163	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34538878	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34878593	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3813904	0.86[ASN][1000 genomes]
rs4985412	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4985539	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4985541	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4985544	0.86[ASN][1000 genomes]
rs4985548	0.91[ASN][1000 genomes]
rs6499328	0.90[ASN][1000 genomes]
rs6499329	0.88[ASN][1000 genomes]
rs6499330	0.87[ASN][1000 genomes]
rs7193968	0.88[ASN][1000 genomes]
rs72792838	0.87[ASN][1000 genomes]
rs8053536	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8061569	0.86[ASN][1000 genomes]
rs8061854	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv14380	chr16:70650573-70660117	Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4985540	IL34	cis	lung	GTEx
rs4985540	LOC440348	Cis_chr	lymphoblastoid	RTeQTL

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:70647400-70669200	Weak transcription	Right Atrium	heart
2	chr16:70647800-70664800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr16:70655200-70657000	Active TSS	HUES6 Cell Line	embryonic stem cell
4	chr16:70656000-70657000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr16:70656000-70657400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr16:70656200-70657400	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr16:70656200-70657400	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr16:70656200-70659000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr16:70656400-70657400	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr16:70656800-70657000	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
11	chr16:70656800-70657200	Flanking Active TSS	H9 Cell Line	embryonic stem cell
12	chr16:70656800-70657200	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
13	chr16:70656800-70657400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr16:70656800-70657600	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
15	chr16:70656800-70657600	Enhancers	H1 Cell Line	embryonic stem cell

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