Variant report

Variant	rs1424158
Chromosome Location	chr16:82236057-82236058
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10514533	0.83[MEX][hapmap]
rs11862388	0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1364288	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1424152	0.84[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs16956683	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1979649	1.00[CHB][hapmap];0.92[CHD][hapmap];0.90[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.89[ASN][1000 genomes]
rs1979650	0.89[ASN][1000 genomes]
rs1979652	0.89[ASN][1000 genomes]
rs1979653	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs2042426	0.89[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.87[MEX][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2042427	0.86[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2303268	0.82[MEX][hapmap]
rs2317884	0.87[MEX][hapmap]
rs2911410	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2911411	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2911413	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2911416	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2932814	1.00[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.89[ASN][1000 genomes]
rs2932817	0.89[ASN][1000 genomes]
rs2932818	0.89[ASN][1000 genomes]
rs2932835	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2932836	0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2932837	0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2932839	0.82[JPT][hapmap]
rs2932841	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2967338	0.89[ASN][1000 genomes]
rs2967339	1.00[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.89[ASN][1000 genomes]
rs2967340	1.00[CHB][hapmap];0.92[CHD][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs2967341	0.85[ASN][1000 genomes]
rs2967345	0.89[ASN][1000 genomes]
rs2967346	0.89[ASN][1000 genomes]
rs2967347	0.89[ASN][1000 genomes]
rs2967348	0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2967388	0.89[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.84[MEX][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2967391	0.85[CHD][hapmap]
rs2967393	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2967394	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2967395	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs2967398	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2967399	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2967410	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs34629110	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34652971	0.83[AMR][1000 genomes]
rs35268560	0.84[ASN][1000 genomes]
rs3829552	0.87[MEX][hapmap]
rs4516225	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57676882	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs66765750	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs67779658	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs71388379	0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7192520	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7498251	0.82[ASN][1000 genomes]
rs7500500	0.84[ASN][1000 genomes]
rs7500585	0.87[ASN][1000 genomes]
rs7500717	0.84[ASN][1000 genomes]
rs7500862	0.89[ASN][1000 genomes]
rs8049396	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs902542	0.90[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs929892	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs9708960	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9745812	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9932036	0.89[ASN][1000 genomes]
rs9940988	0.86[ASN][1000 genomes]
rs9941073	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532598	chr16:82034475-82738733	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases
2	nsv532599	chr16:82074439-82926863	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
3	nsv573367	chr16:82140561-83040846	Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
4	nsv833302	chr16:82188351-82363863	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	esv1844598	chr16:82195234-82429790	Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	esv1847414	chr16:82195234-82429790	Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv532600	chr16:82197554-82314289	Enhancers Weak transcription Active TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
8	nsv907015	chr16:82203758-82284056	Active TSS Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
9	nsv1065896	chr16:82213517-82731994	Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
10	nsv907016	chr16:82235303-82280548	ZNF genes & repeats Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1424158	MPHOSPH6	cis	lymphoblastoid	seeQTL
rs1424158	RP11-55K13.1	cis	Artery Tibial	GTEx
rs1424158	OSGIN1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:82231800-82238600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr16:82235000-82236600	Enhancers	Rectal Smooth Muscle	rectum
3	chr16:82235000-82237000	Enhancers	Colon Smooth Muscle	Colon
4	chr16:82235400-82236400	Enhancers	Pancreatic Islets	Pancreatic Islet
5	chr16:82235600-82236800	Enhancers	Fetal Kidney	kidney

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