Variant report

Variant	rs12656474
Chromosome Location	chr5:118777538-118777539
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	NR3C1	chr5:118777471-118777764	A549	lung:	n/a	n/a

Variant related genes	Relation type
RNA5SP190	TF binding region

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10042168	0.95[CHB][hapmap]
rs10045066	0.95[CHB][hapmap];0.81[JPT][hapmap]
rs10051019	0.95[CHB][hapmap];0.95[CHD][hapmap]
rs10067734	0.88[ASN][1000 genomes]
rs10069875	0.95[CHB][hapmap];0.95[CHD][hapmap];0.82[JPT][hapmap]
rs10072515	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10073818	0.95[CHB][hapmap]
rs10078097	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs10214151	1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10478426	0.95[CHB][hapmap];0.97[CHD][hapmap];0.85[GIH][hapmap];0.86[JPT][hapmap]
rs11241506	0.95[CHB][hapmap];0.81[JPT][hapmap]
rs11948223	1.00[AMR][1000 genomes]
rs11951264	1.00[AMR][1000 genomes]
rs12653056	0.95[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap]
rs12653702	0.95[CHB][hapmap]
rs12658566	0.91[CHB][hapmap];0.98[CHD][hapmap];0.92[GIH][hapmap];0.86[JPT][hapmap]
rs13361193	0.95[CHB][hapmap];0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs2075698	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs2287712	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs2303003	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs257972	0.82[CHB][hapmap]
rs257974	0.82[CHB][hapmap]
rs26180	0.82[CHB][hapmap]
rs3756512	0.95[CHB][hapmap];0.98[CHD][hapmap];0.92[GIH][hapmap];0.86[JPT][hapmap]
rs3797363	0.95[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];0.86[JPT][hapmap];0.83[LWK][hapmap]
rs3797364	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs3797367	0.95[CHB][hapmap]
rs3822525	0.91[CHB][hapmap];0.86[JPT][hapmap];0.89[YRI][hapmap]
rs3850200	0.95[CHB][hapmap];0.95[CHD][hapmap];0.82[JPT][hapmap]
rs58359191	1.00[AMR][1000 genomes]
rs61553637	1.00[AMR][1000 genomes]
rs6894991	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs6895345	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs73244920	0.95[AMR][1000 genomes]
rs7709833	0.95[AMR][1000 genomes]
rs7712974	0.83[GIH][hapmap]
rs7714121	0.83[MKK][hapmap];0.89[YRI][hapmap]
rs7721314	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7721602	0.82[CHB][hapmap]
rs9327101	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030717	chr5:118709310-118836951	Active TSS Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats 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
2	nsv427732	chr5:118730999-119034741	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv4974	chr5:118750259-118795376	Genic enhancers Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv1024455	chr5:118770429-119487982	Strong transcription Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:118775400-118787600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr5:118775600-118781200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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