Variant report

Variant	rs12386038
Chromosome Location	chr16:31822354-31822355
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	HNF4A	chr16:31822234-31822543	HepG2	liver:	n/a	chr16:31822300-31822322 chr16:31822310-31822325 chr16:31822312-31822325 chr16:31822312-31822325 chr16:31822312-31822325
2	RAD21	chr16:31822310-31822459	HepG2	liver:	n/a	n/a
3	RAD21	chr16:31822321-31822573	HepG2	liver:	n/a	n/a
4	HNF4A	chr16:31822228-31822524	HepG2	liver:	n/a	chr16:31822300-31822322 chr16:31822310-31822325 chr16:31822312-31822325 chr16:31822312-31822325 chr16:31822312-31822325

Variant related genes	Relation type
VN1R3	TF binding region

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1045483	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1073513	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11150639	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11150644	0.83[AMR][1000 genomes]
rs11642525	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12325485	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12921028	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1304163	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1406178	0.95[CEU][hapmap];0.81[JPT][hapmap];0.81[EUR][1000 genomes]
rs1468158	0.95[CEU][hapmap];0.81[JPT][hapmap];0.82[EUR][1000 genomes]
rs1468159	0.95[CEU][hapmap];0.81[JPT][hapmap];0.82[EUR][1000 genomes]
rs1528317	0.95[CEU][hapmap];0.81[JPT][hapmap]
rs1599855	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1881318	0.95[CEU][hapmap];0.81[JPT][hapmap]
rs2008774	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2078923	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2091521	0.95[CEU][hapmap]
rs2097683	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2106580	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2141349	0.91[CEU][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2157969	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2188620	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2214139	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2359220	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2359223	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2359228	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2359231	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3088127	0.82[EUR][1000 genomes]
rs34632985	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3751738	0.95[CEU][hapmap];0.86[JPT][hapmap];0.82[EUR][1000 genomes]
rs3751742	0.95[CEU][hapmap];0.81[JPT][hapmap];0.82[EUR][1000 genomes]
rs3937426	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4297693	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4572414	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4632148	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4889687	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57647401	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6565277	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6565284	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7187074	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7188748	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7192274	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7192670	0.91[ASN][1000 genomes]
rs7195700	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7196252	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7197470	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7197963	0.95[CEU][hapmap];0.81[JPT][hapmap];0.82[EUR][1000 genomes]
rs7198038	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7359491	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7498390	0.89[EUR][1000 genomes]
rs8043927	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8048027	0.83[ASN][1000 genomes]
rs8048741	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8052434	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8054649	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs929209	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9927103	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9928595	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9929259	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9939255	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][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	nsv905747	chr16:31394179-31888684	Bivalent/Poised TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	123 gene(s)	inside rSNPs	diseases
2	esv3366795	chr16:31534951-31827424	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
3	nsv1067321	chr16:31652036-31959992	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
4	nsv918074	chr16:31669781-31935033	ZNF genes & repeats Weak transcription Genic enhancers Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
5	nsv1063037	chr16:31669981-31934894	Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
6	nsv542903	chr16:31669981-31934894	Flanking Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
7	esv3446880	chr16:31734687-31891223	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
8	nsv1787	chr16:31816780-31847875	ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Enhancers Active TSS	TF binding region CpG island lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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