Variant report

Variant	rs28756345
Chromosome Location	chr5:35771279-35771280
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	EP300	chr5:35771245-35771862	Hela-S3	cervix:	n/a	chr5:35771350-35771364
2	POLR2A	chr5:35771262-35771764	Hela-S3	cervix:	n/a	n/a
3	MYC	chr5:35771179-35771936	MCF10A-Er-Src	breast:	n/a	n/a
4	RAD21	chr5:35771270-35771849	Hela-S3	cervix:	n/a	chr5:35771432-35771444
5	STAT3	chr5:35771094-35771937	Hela-S3	cervix:	n/a	chr5:35771395-35771403
6	SMC3	chr5:35771250-35771885	Hela-S3	cervix:	n/a	chr5:35771465-35771475
7	RFX5	chr5:35771263-35772143	Hela-S3	cervix:	n/a	n/a
8	GTF2F1	chr5:35770848-35772040	Hela-S3	cervix:	n/a	n/a
9	CEBPB	chr5:35770772-35773113	Hela-S3	cervix:	n/a	chr5:35772052-35772064 chr5:35771698-35771707 chr5:35771698-35771707 chr5:35772945-35772956 chr5:35771698-35771707 chr5:35771696-35771709
10	RCOR1	chr5:35771242-35771919	Hela-S3	cervix:	n/a	n/a
11	FOS	chr5:35771088-35771893	MCF10A-Er-Src	breast:	n/a	chr5:35771353-35771362
12	MAX	chr5:35771034-35771893	Hela-S3	cervix:	n/a	n/a
13	CHD2	chr5:35771276-35771871	Hela-S3	cervix:	n/a	n/a

Variant related genes	Relation type
SPEF2	TF binding region

Extended variants
information (count: 103 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs10041865	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10058723	1.00[EUR][1000 genomes]
rs10077553	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10079269	1.00[EUR][1000 genomes]
rs10079517	1.00[EUR][1000 genomes]
rs10491432	1.00[EUR][1000 genomes]
rs10491433	1.00[EUR][1000 genomes]
rs11567717	1.00[EUR][1000 genomes]
rs11567730	1.00[EUR][1000 genomes]
rs11567764	1.00[EUR][1000 genomes]
rs11951270	1.00[EUR][1000 genomes]
rs1374015	1.00[EUR][1000 genomes]
rs1494570	1.00[EUR][1000 genomes]
rs16902367	1.00[EUR][1000 genomes]
rs16902514	1.00[EUR][1000 genomes]
rs16902535	1.00[EUR][1000 genomes]
rs16902557	1.00[EUR][1000 genomes]
rs16902562	1.00[EUR][1000 genomes]
rs16902592	1.00[EUR][1000 genomes]
rs16902593	1.00[EUR][1000 genomes]
rs16902594	1.00[EUR][1000 genomes]
rs16902638	1.00[EUR][1000 genomes]
rs16902639	1.00[EUR][1000 genomes]
rs16902643	1.00[EUR][1000 genomes]
rs16902650	1.00[EUR][1000 genomes]
rs16902651	1.00[EUR][1000 genomes]
rs55662701	1.00[EUR][1000 genomes]
rs55696459	1.00[EUR][1000 genomes]
rs56053392	1.00[EUR][1000 genomes]
rs56169453	1.00[EUR][1000 genomes]
rs56276485	1.00[EUR][1000 genomes]
rs56297110	1.00[EUR][1000 genomes]
rs56773364	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57435143	1.00[EUR][1000 genomes]
rs57498894	1.00[EUR][1000 genomes]
rs58541693	1.00[EUR][1000 genomes]
rs58671818	1.00[EUR][1000 genomes]
rs58872016	1.00[EUR][1000 genomes]
rs59555387	1.00[EUR][1000 genomes]
rs59714026	1.00[EUR][1000 genomes]
rs6451222	1.00[EUR][1000 genomes]
rs6861184	1.00[EUR][1000 genomes]
rs6864736	1.00[EUR][1000 genomes]
rs6875303	1.00[EUR][1000 genomes]
rs6876261	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6881747	1.00[EUR][1000 genomes]
rs6881919	1.00[EUR][1000 genomes]
rs6894309	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73076116	1.00[EUR][1000 genomes]
rs73076118	1.00[EUR][1000 genomes]
rs73080218	1.00[EUR][1000 genomes]
rs73080241	1.00[EUR][1000 genomes]
rs73080293	1.00[EUR][1000 genomes]
rs73082265	1.00[EUR][1000 genomes]
rs73082277	1.00[EUR][1000 genomes]
rs73084351	1.00[EUR][1000 genomes]
rs73084388	1.00[EUR][1000 genomes]
rs73084398	1.00[EUR][1000 genomes]
rs73086208	1.00[EUR][1000 genomes]
rs73086212	1.00[EUR][1000 genomes]
rs73086213	1.00[EUR][1000 genomes]
rs73086237	1.00[EUR][1000 genomes]
rs73086243	1.00[EUR][1000 genomes]
rs73086251	1.00[EUR][1000 genomes]
rs73086261	1.00[EUR][1000 genomes]
rs73086281	1.00[EUR][1000 genomes]
rs73086282	1.00[EUR][1000 genomes]
rs73086302	1.00[EUR][1000 genomes]
rs73088209	1.00[EUR][1000 genomes]
rs73088238	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73088244	1.00[EUR][1000 genomes]
rs73090209	1.00[EUR][1000 genomes]
rs73090222	1.00[EUR][1000 genomes]
rs73090239	1.00[EUR][1000 genomes]
rs73090241	1.00[EUR][1000 genomes]
rs73090248	1.00[EUR][1000 genomes]
rs73090257	1.00[EUR][1000 genomes]
rs73090276	1.00[EUR][1000 genomes]
rs73090284	1.00[EUR][1000 genomes]
rs73090289	1.00[EUR][1000 genomes]
rs73090291	1.00[EUR][1000 genomes]
rs73090295	1.00[EUR][1000 genomes]
rs73090298	1.00[EUR][1000 genomes]
rs73092011	1.00[EUR][1000 genomes]
rs73092033	1.00[EUR][1000 genomes]
rs73092034	1.00[EUR][1000 genomes]
rs73092092	1.00[EUR][1000 genomes]
rs73092100	1.00[EUR][1000 genomes]
rs73094009	1.00[EUR][1000 genomes]
rs73094019	1.00[EUR][1000 genomes]
rs73094022	1.00[EUR][1000 genomes]
rs73750806	1.00[EUR][1000 genomes]
rs73750816	1.00[EUR][1000 genomes]
rs73750817	1.00[EUR][1000 genomes]
rs7701519	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7704710	1.00[EUR][1000 genomes]
rs7708334	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7710405	1.00[EUR][1000 genomes]
rs7714297	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7720394	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7724777	1.00[EUR][1000 genomes]
rs9292610	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv525477	chr5:35530905-35792990	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:35769400-35772000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr5:35770000-35772800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr5:35770600-35771400	Enhancers	Muscle Satellite Cultured Cells	--
4	chr5:35770600-35771400	Enhancers	Osteobl	bone
5	chr5:35770600-35772400	Enhancers	HSMM	muscle
6	chr5:35770600-35772400	Enhancers	NHDF-Ad	bronchial
7	chr5:35770600-35773000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr5:35770800-35771600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr5:35770800-35772000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr5:35770800-35772200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr5:35770800-35772400	Flanking Active TSS	Hela-S3	cervix
12	chr5:35770800-35772600	Enhancers	NHLF	lung
13	chr5:35771000-35772200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr5:35771000-35772400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr5:35771000-35781800	Weak transcription	Brain Anterior Caudate	brain
16	chr5:35771200-35771600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr5:35771200-35772200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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