Variant report

Variant	rs535691
Chromosome Location	chr18:11488582-11488583
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	CEBPB	chr18:11488195-11488753	Hela-S3	cervix:	n/a	chr18:11488420-11488431
2	MYC	chr18:11488261-11488662	MCF10A-Er-Src	breast:	n/a	n/a
3	MYC	chr18:11488391-11488617	MCF10A-Er-Src	breast:	n/a	n/a
4	BRCA1	chr18:11488272-11488735	Hela-S3	cervix:	n/a	n/a
5	GTF2F1	chr18:11488292-11488587	Hela-S3	cervix:	n/a	n/a
6	MAX	chr18:11488313-11488584	Hela-S3	cervix:	n/a	n/a
7	STAT3	chr18:11488187-11488611	MCF10A-Er-Src	breast:	n/a	n/a
8	FOS	chr18:11488218-11488607	MCF10A-Er-Src	breast:	n/a	n/a
9	RAD21	chr18:11488283-11488582	Hela-S3	cervix:	n/a	n/a
10	CEBPB	chr18:11488269-11488597	HepG2	liver:	n/a	chr18:11488420-11488431
11	EP300	chr18:11488232-11488622	Hela-S3	cervix:	n/a	n/a
12	RFX5	chr18:11488225-11488678	Hela-S3	cervix:	n/a	n/a
13	RCOR1	chr18:11488310-11488636	Hela-S3	cervix:	n/a	n/a
14	FOS	chr18:11488183-11488655	MCF10A-Er-Src	breast:	n/a	n/a
15	SMC3	chr18:11488215-11488606	Hela-S3	cervix:	n/a	chr18:11488232-11488239

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLC35G4-1	chr18:11487834-11488594	XLOC_012626
2	lnc-SLC35G4-1	chr18:11487994-11488594	XLOC_012626
3	lnc-SLC35G4-1	chr18:11488569-11488594	ENSG00000267252.1

Variant related genes	Relation type
ENSG00000267252	TF binding region

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1026390	0.98[EUR][1000 genomes]
rs1153770	0.97[EUR][1000 genomes]
rs12327397	0.98[EUR][1000 genomes]
rs1249039	0.93[EUR][1000 genomes]
rs12954125	0.91[EUR][1000 genomes]
rs1455244	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs1455247	0.97[EUR][1000 genomes]
rs2198661	0.95[EUR][1000 genomes]
rs2219170	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs2282534	0.98[EUR][1000 genomes]
rs3974973	0.90[EUR][1000 genomes]
rs472091	0.91[CEU][hapmap]
rs479999	0.96[CEU][hapmap];0.83[CHB][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs480187	0.96[CEU][hapmap];0.82[CHB][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs486674	0.91[CEU][hapmap]
rs489812	0.98[EUR][1000 genomes]
rs495434	0.95[CEU][hapmap];0.98[EUR][1000 genomes]
rs508777	0.98[EUR][1000 genomes]
rs508844	0.97[EUR][1000 genomes]
rs512262	0.98[EUR][1000 genomes]
rs566680	0.95[CEU][hapmap];0.82[CHB][hapmap];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs572045	0.98[EUR][1000 genomes]
rs6505654	0.98[EUR][1000 genomes]
rs6505656	0.98[EUR][1000 genomes]
rs6505657	0.96[EUR][1000 genomes]
rs6505658	0.83[CEU][hapmap];0.82[EUR][1000 genomes]
rs7226808	0.83[CEU][hapmap]
rs7231219	0.98[EUR][1000 genomes]
rs7236863	0.94[EUR][1000 genomes]
rs7238769	0.97[EUR][1000 genomes]
rs8083560	0.97[EUR][1000 genomes]
rs9303732	0.98[EUR][1000 genomes]
rs9964367	0.82[EUR][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	nsv458029	chr18:10814334-11662151	Flanking Active TSS Enhancers ZNF genes & repeats Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv576480	chr18:10814334-11662151	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
3	nsv1066659	chr18:11246502-11709409	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	24 gene(s)	inside rSNPs	diseases
4	nsv1057976	chr18:11251898-11664914	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	24 gene(s)	inside rSNPs	diseases
5	nsv543650	chr18:11251898-11664914	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	24 gene(s)	inside rSNPs	diseases
6	nsv1056541	chr18:11336695-11558542	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
7	nsv543651	chr18:11336695-11558542	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
8	nsv458031	chr18:11362587-11557161	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
9	nsv576482	chr18:11362587-11557161	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
10	nsv909381	chr18:11431945-11609487	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 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	chr18:11479800-11489400	Weak transcription	Thymus	Thymus
2	chr18:11487200-11488600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr18:11487200-11488800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr18:11487200-11489000	Enhancers	HMEC	breast
5	chr18:11487400-11488600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr18:11487400-11488800	Enhancers	NHEK	skin
7	chr18:11487800-11488800	Enhancers	Hela-S3	cervix
8	chr18:11488400-11488600	Enhancers	Muscle Satellite Cultured Cells	--
9	chr18:11488400-11489600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr18:11488400-11493800	Weak transcription	NHDF-Ad	bronchial

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