Variant report

Variant	rs11958734
Chromosome Location	chr5:112655446-112655447
allele	G/T
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	MYC	chr5:112655373-112655639	MCF10A-Er-Src	breast:	n/a	n/a
2	STAT3	chr5:112655364-112655669	MCF10A-Er-Src	breast:	n/a	n/a
3	FOS	chr5:112655366-112655566	MCF10A-Er-Src	breast:	n/a	n/a
4	STAT3	chr5:112655431-112655636	MCF10A-Er-Src	breast:	n/a	n/a
5	MYC	chr5:112655348-112655704	MCF10A-Er-Src	breast:	n/a	n/a
6	FOS	chr5:112655427-112655599	MCF10A-Er-Src	breast:	n/a	n/a
7	POLR2A	chr5:112655378-112655597	MCF10A-Er-Src	breast:	n/a	n/a
8	FOS	chr5:112655373-112655657	MCF10A-Er-Src	breast:	n/a	n/a
9	STAT3	chr5:112655335-112655608	MCF10A-Er-Src	breast:	n/a	n/a
10	FOS	chr5:112655367-112655669	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
ENSG00000232633	TF binding region

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10037836	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10037845	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10038017	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10040533	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10040770	1.00[EUR][1000 genomes]
rs10043512	1.00[ASN][1000 genomes]
rs10044201	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10051109	0.94[EUR][1000 genomes]
rs10056104	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10058535	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10059129	0.94[EUR][1000 genomes]
rs10070884	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10070990	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10074346	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10075447	0.94[EUR][1000 genomes]
rs10077020	1.00[CHB][hapmap]
rs10478121	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10519344	1.00[EUR][1000 genomes]
rs11953478	0.94[EUR][1000 genomes]
rs11954016	0.94[EUR][1000 genomes]
rs11954410	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11958613	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12108831	1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13356396	0.81[EUR][1000 genomes]
rs13361059	1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13361060	1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13362158	0.94[EUR][1000 genomes]
rs1443691	1.00[JPT][hapmap]
rs17135493	0.85[EUR][1000 genomes]
rs17135568	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17135570	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1882620	1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2068922	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28462299	1.00[ASN][1000 genomes]
rs28494592	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55794576	0.94[EUR][1000 genomes]
rs56875463	0.94[EUR][1000 genomes]
rs57727389	1.00[ASN][1000 genomes]
rs61560548	1.00[ASN][1000 genomes]
rs6868620	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6871995	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6874313	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6874561	0.85[EUR][1000 genomes]
rs73779001	1.00[EUR][1000 genomes]
rs73779022	0.94[EUR][1000 genomes]
rs73781511	0.86[ASN][1000 genomes]
rs73781512	1.00[ASN][1000 genomes]
rs73781513	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73781514	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7700940	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7707680	1.00[JPT][hapmap]
rs7718459	1.00[ASN][1000 genomes]
rs7719166	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7720189	1.00[ASN][1000 genomes]
rs7736171	1.00[ASN][1000 genomes]
rs9285877	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9326881	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9326882	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9326883	1.00[CHB][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv599396	chr5:112408944-112853189	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv882718	chr5:112519471-112674376	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv882719	chr5:112568212-112706511	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats 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	2 gene(s)	inside rSNPs	diseases
4	nsv1024747	chr5:112592710-112679373	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv1018078	chr5:112615220-112657404	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv949165	chr5:112615626-112730216	Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112648800-112666600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr5:112653000-112673600	Weak transcription	Fetal Kidney	kidney
3	chr5:112655000-112657600	Enhancers	Liver	Liver
4	chr5:112655200-112655800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr5:112655200-112656000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr5:112655200-112656200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr5:112655200-112656400	Enhancers	Stomach Mucosa	stomach
8	chr5:112655400-112655600	Enhancers	Placenta	Placenta
9	chr5:112655400-112656000	Enhancers	HMEC	breast
10	chr5:112655400-112657400	Enhancers	Primary hematopoietic stem cells	blood

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