Variant report

Variant	rs35096750
Chromosome Location	chr3:23314539-23314540
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	FOXA1	chr3:23314402-23314772	A549	lung:	n/a	n/a
2	FOXA1	chr3:23314397-23314728	A549	lung:	n/a	n/a

Variant related genes	Relation type
ENSG00000206728	TF binding region

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs12106681	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13059155	0.88[EUR][1000 genomes]
rs13060112	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13060251	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13063185	0.81[EUR][1000 genomes]
rs13063451	0.86[EUR][1000 genomes]
rs13066741	0.88[EUR][1000 genomes]
rs13067514	0.85[EUR][1000 genomes]
rs13073761	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13076527	0.91[EUR][1000 genomes]
rs13078970	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13084250	0.82[EUR][1000 genomes]
rs13085266	0.91[EUR][1000 genomes]
rs13087238	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13087563	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13090335	0.88[EUR][1000 genomes]
rs13090633	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13092830	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13096187	0.88[EUR][1000 genomes]
rs13099586	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13100499	0.86[EUR][1000 genomes]
rs13100605	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34134134	0.88[EUR][1000 genomes]
rs34322396	0.86[EUR][1000 genomes]
rs34443476	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34474308	0.85[EUR][1000 genomes]
rs34504120	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34513914	0.82[EUR][1000 genomes]
rs34584255	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34619482	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34732257	0.91[EUR][1000 genomes]
rs34743949	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34758087	0.88[EUR][1000 genomes]
rs34804976	0.86[EUR][1000 genomes]
rs34827773	0.85[EUR][1000 genomes]
rs34894979	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34916096	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34928966	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35021696	0.86[EUR][1000 genomes]
rs35024744	0.81[EUR][1000 genomes]
rs35028631	0.88[EUR][1000 genomes]
rs35055753	0.88[EUR][1000 genomes]
rs35156003	0.88[EUR][1000 genomes]
rs35177750	0.86[EUR][1000 genomes]
rs35179250	0.88[EUR][1000 genomes]
rs35190363	0.91[EUR][1000 genomes]
rs35218978	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35230557	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35240920	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35245309	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35266274	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35273607	0.88[EUR][1000 genomes]
rs35314441	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35346188	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35347265	0.88[EUR][1000 genomes]
rs35383024	0.86[EUR][1000 genomes]
rs35402533	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35408638	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35497505	0.88[EUR][1000 genomes]
rs35587590	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35649850	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35657558	0.82[EUR][1000 genomes]
rs35776486	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35778452	0.86[EUR][1000 genomes]
rs35869522	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35892300	0.81[EUR][1000 genomes]
rs35902312	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35907941	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35928592	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs35975795	0.88[EUR][1000 genomes]
rs36060079	0.88[EUR][1000 genomes]
rs36123979	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36124326	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs58522464	0.86[EUR][1000 genomes]
rs60074421	0.86[EUR][1000 genomes]
rs71317819	0.84[EUR][1000 genomes]
rs71317820	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs71317821	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs71317822	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs71317823	0.85[EUR][1000 genomes]
rs71317824	0.85[EUR][1000 genomes]
rs71317827	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71317829	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71317834	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs71322171	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs71322172	0.88[EUR][1000 genomes]
rs71322173	0.85[EUR][1000 genomes]
rs71322174	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71322183	0.88[EUR][1000 genomes]
rs71322184	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs71322185	0.86[EUR][1000 genomes]
rs71322187	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs71322189	0.86[EUR][1000 genomes]
rs71322190	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv589947	chr3:23277838-23403943	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1002823	chr3:23277838-23623083	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv589948	chr3:23287141-23390221	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23295200-23321800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr3:23298800-23336600	Weak transcription	Thymus	Thymus
3	chr3:23302400-23321000	Weak transcription	Pancreas	Pancrea
4	chr3:23305600-23318400	Weak transcription	Brain Substantia Nigra	brain
5	chr3:23307200-23316000	Weak transcription	Primary B cells from cord blood	blood
6	chr3:23312000-23316800	Weak transcription	Brain Hippocampus Middle	brain
7	chr3:23312400-23314800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr3:23313400-23314600	ZNF genes & repeats	GM12878-XiMat	blood
9	chr3:23313800-23316000	Enhancers	Muscle Satellite Cultured Cells	--
10	chr3:23314000-23314600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr3:23314000-23315800	Weak transcription	Lung	lung
12	chr3:23314000-23315800	Enhancers	NHLF	lung
13	chr3:23314000-23316400	Weak transcription	Right Ventricle	heart
14	chr3:23314000-23317000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr3:23314200-23315400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:23314200-23315600	Enhancers	NHDF-Ad	bronchial
17	chr3:23314200-23315600	Enhancers	Osteobl	bone
18	chr3:23314200-23315800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:23314400-23314600	Enhancers	Primary B cells from peripheral blood	blood
20	chr3:23314400-23314600	ZNF genes & repeats	Fetal Kidney	kidney
21	chr3:23314400-23314600	Enhancers	HSMMtube	muscle
22	chr3:23314400-23314800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr3:23314400-23315000	Weak transcription	Primary T cells from cord blood	blood
24	chr3:23314400-23315800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr3:23314400-23315800	Enhancers	A549	lung
26	chr3:23314400-23317000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr3:23314400-23317400	Weak transcription	HSMM	muscle
28	chr3:23314400-23319400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr3:23314400-23330400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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