Variant report

Variant	rs562940
Chromosome Location	chr13:76309023-76309024
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1092601	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1323712	0.83[EUR][1000 genomes]
rs1830760	0.83[AMR][1000 genomes]
rs1924214	0.83[EUR][1000 genomes]
rs2328953	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2328954	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2328956	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2761398	0.84[EUR][1000 genomes]
rs34545980	0.84[EUR][1000 genomes]
rs479824	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs480929	0.85[EUR][1000 genomes]
rs4885345	0.83[EUR][1000 genomes]
rs502171	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs504273	0.85[EUR][1000 genomes]
rs508596	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs528783	0.83[EUR][1000 genomes]
rs560069	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs585233	0.83[EUR][1000 genomes]
rs603274	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs607095	0.84[EUR][1000 genomes]
rs634729	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs636505	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs636580	0.80[EUR][1000 genomes]
rs648632	0.82[AMR][1000 genomes]
rs776527	0.83[EUR][1000 genomes]
rs9530463	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9544034	0.83[EUR][1000 genomes]
rs9544035	0.83[EUR][1000 genomes]
rs9573636	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949152	chr13:76211453-76366622	Enhancers Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1091	chr13:76282392-76327906	ZNF genes & repeats Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv832646	chr13:76300428-76483102	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:76294800-76321800	Weak transcription	NH-A	brain
2	chr13:76298600-76309200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr13:76298600-76313000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr13:76298600-76318800	Weak transcription	Gastric	stomach
5	chr13:76299600-76310400	Weak transcription	NHLF	lung
6	chr13:76299800-76313000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr13:76300200-76309200	Weak transcription	NHDF-Ad	bronchial
8	chr13:76300200-76313000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr13:76301200-76310400	Weak transcription	HSMMtube	muscle
10	chr13:76301400-76310800	Weak transcription	Fetal Kidney	kidney
11	chr13:76304600-76310800	Weak transcription	Fetal Intestine Large	intestine
12	chr13:76306200-76330600	Weak transcription	Thymus	Thymus
13	chr13:76306400-76310200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr13:76307200-76318200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr13:76307600-76310200	Strong transcription	Muscle Satellite Cultured Cells	--
16	chr13:76307800-76312400	Strong transcription	HSMM	muscle
17	chr13:76308200-76310200	Weak transcription	HepG2	liver
18	chr13:76308200-76314800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr13:76308200-76324800	Weak transcription	Left Ventricle	heart
20	chr13:76308200-76345200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr13:76308400-76310200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr13:76308400-76310400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr13:76308400-76313200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr13:76308600-76309600	Strong transcription	Osteobl	bone
25	chr13:76308600-76312800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr13:76308800-76310000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr13:76309000-76311000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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