Variant report

Variant	rs10235427
Chromosome Location	chr7:26908398-26908399
allele	C/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	SP1	chr7:26908375-26909029	HCT-116	colon:	n/a	n/a
2	FOS	chr7:26908200-26909096	MCF10A-Er-Src	breast:	n/a	chr7:26908619-26908626 chr7:26908458-26908472 chr7:26908618-26908626 chr7:26908614-26908625 chr7:26908618-26908627
3	E2F4	chr7:26908254-26908988	MCF10A-Er-Src	breast:	n/a	n/a
4	FOSL1	chr7:26908383-26909058	HCT-116	colon:	n/a	chr7:26908619-26908626 chr7:26908458-26908472 chr7:26908618-26908626 chr7:26908614-26908625 chr7:26908618-26908627
5	FOS	chr7:26908208-26909095	MCF10A-Er-Src	breast:	n/a	chr7:26908619-26908626 chr7:26908458-26908472 chr7:26908618-26908626 chr7:26908614-26908625 chr7:26908618-26908627
6	RFX5	chr7:26908382-26909057	Hela-S3	cervix:	n/a	n/a
7	CEBPB	chr7:26908280-26909348	Hela-S3	cervix:	n/a	chr7:26909194-26909205

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:26902484..26906060-chr7:26906980..26911277,7	MCF-7	breast:
2	chr7:26903581..26905887-chr7:26906835..26909614,2	MCF-7	breast:

Variant related genes	Relation type
SKAP2	TF binding region
ENSG00000005020	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10085562	0.81[EUR][1000 genomes]
rs10227575	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10231272	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10235680	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10238067	0.85[EUR][1000 genomes]
rs10246300	0.83[EUR][1000 genomes]
rs10247117	0.88[EUR][1000 genomes]
rs10249383	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10250097	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10250304	0.83[EUR][1000 genomes]
rs10250321	0.85[EUR][1000 genomes]
rs10252268	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10257057	0.81[EUR][1000 genomes]
rs10261927	0.81[EUR][1000 genomes]
rs10262212	0.81[EUR][1000 genomes]
rs10262527	0.83[EUR][1000 genomes]
rs10262797	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10265607	0.83[EUR][1000 genomes]
rs10271306	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10277060	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10280403	0.88[EUR][1000 genomes]
rs10486480	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10486481	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12155150	0.81[EUR][1000 genomes]
rs12333690	0.88[EUR][1000 genomes]
rs1391805	0.81[ASN][1000 genomes]
rs17154538	0.88[EUR][1000 genomes]
rs17323962	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs213524	0.81[ASN][1000 genomes]
rs28465643	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28781274	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs586947	0.81[ASN][1000 genomes]
rs67719086	0.88[EUR][1000 genomes]
rs73069515	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73069545	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7779269	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26905000-26908400	Weak transcription	Osteobl	bone
2	chr7:26905200-26908400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr7:26905200-26908400	Weak transcription	A549	lung
4	chr7:26905200-26908600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr7:26905800-26908400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr7:26907800-26908400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr7:26908000-26908600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr7:26908000-26908800	Enhancers	Hela-S3	cervix
9	chr7:26908000-26909400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr7:26908000-26909400	Enhancers	HMEC	breast
11	chr7:26908000-26909400	Enhancers	NHEK	skin
12	chr7:26908200-26908600	Flanking Active TSS	HSMMtube	muscle
13	chr7:26908200-26908800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr7:26908200-26908800	Enhancers	NHDF-Ad	bronchial
15	chr7:26908200-26909200	Enhancers	Muscle Satellite Cultured Cells	--
16	chr7:26908200-26909200	Enhancers	HSMM	muscle

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