Variant report

Variant	rs882541
Chromosome Location	chr7:26590298-26590299
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	TCF12	chr7:26590225-26590415	H1-hESC	embryonic stem cell:	n/a	n/a
2	EP300	chr7:26590201-26590419	Hela-S3	cervix:	n/a	n/a
3	CEBPB	chr7:26590161-26590511	Hela-S3	cervix:	n/a	n/a
4	RCOR1	chr7:26590267-26590384	Hela-S3	cervix:	n/a	n/a
5	ZKSCAN1	chr7:26590252-26590393	Hela-S3	cervix:	n/a	n/a
6	STAT3	chr7:26590209-26590408	Hela-S3	cervix:	n/a	n/a
7	SMARCB1	chr7:26588866-26590632	Hela-S3	cervix:	n/a	n/a
8	ZNF143	chr7:26590199-26590357	Hela-S3	cervix:	n/a	n/a
9	ZNF263	chr7:26590029-26590431	HEK293-T-REx	kidney:	n/a	chr7:26590207-26590228
10	MAX	chr7:26590206-26590440	Hela-S3	cervix:	n/a	n/a
11	CEBPB	chr7:26590231-26590431	H1-hESC	embryonic stem cell:	n/a	n/a
12	CHD2	chr7:26590264-26590506	Hela-S3	cervix:	n/a	n/a

Variant related genes	Relation type
ENSG00000233760	TF binding region

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10231724	0.81[CHB][hapmap];0.92[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10244803	0.92[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10252484	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1029556	0.89[CEU][hapmap];0.83[CHB][hapmap];0.92[JPT][hapmap];0.97[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1029557	0.92[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1029558	0.88[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1029559	0.96[YRI][hapmap];0.84[AFR][1000 genomes]
rs13223498	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13241848	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1557986	0.82[AMR][1000 genomes]
rs2016454	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2016463	0.89[AFR][1000 genomes]
rs2190188	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2391300	0.86[ASN][1000 genomes]
rs4461797	0.92[CEU][hapmap];0.83[CHB][hapmap];0.92[JPT][hapmap];0.97[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4555996	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56104401	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56156003	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs730558	0.88[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs757805	0.82[CHB][hapmap];0.92[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs757806	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs757807	0.82[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs757808	0.82[CHB][hapmap];0.92[JPT][hapmap];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs757809	0.87[CEU][hapmap];0.81[CHB][hapmap];0.92[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs757810	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs757811	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs757812	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7788433	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7800418	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs882540	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029596	chr7:26302739-26737913	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
2	nsv538804	chr7:26302739-26737913	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv1025538	chr7:26482342-27376045	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
4	nsv538805	chr7:26482342-27376045	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
5	nsv830929	chr7:26587888-26749735	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26578800-26591600	Enhancers	Primary hematopoietic stem cells short term culture	blood
2	chr7:26582400-26592200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr7:26586800-26595600	Weak transcription	Fetal Kidney	kidney
4	chr7:26588000-26595000	Enhancers	Primary hematopoietic stem cells	blood
5	chr7:26588000-26596600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr7:26588200-26590600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr7:26588200-26590600	Enhancers	HMEC	breast
8	chr7:26588800-26590600	Enhancers	NHEK	skin
9	chr7:26588800-26591000	Enhancers	Spleen	Spleen
10	chr7:26589000-26590600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr7:26589000-26590600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr7:26589000-26590600	Enhancers	Fetal Thymus	thymus
13	chr7:26589000-26595800	Weak transcription	Lung	lung
14	chr7:26589600-26598000	Weak transcription	Right Atrium	heart
15	chr7:26589800-26591600	Enhancers	Hela-S3	cervix
16	chr7:26589800-26594400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr7:26589800-26595800	Weak transcription	Gastric	stomach
18	chr7:26590200-26590600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

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