Variant report

Variant	rs4885687
Chromosome Location	chr13:80561254-80561255
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10507901	0.86[ASN][1000 genomes]
rs12585712	0.81[ASN][1000 genomes]
rs1837295	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1853995	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2196781	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2329144	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2329147	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs35409297	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3843950	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3850060	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3861146	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4290373	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4306392	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4885688	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs66994466	0.88[ASN][1000 genomes]
rs7317135	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7333430	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9531007	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9531009	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9545275	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9545281	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9545290	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9545292	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9545295	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9574522	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][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	nsv832658	chr13:80486980-80680221	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv562417	chr13:80489814-80618915	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv900591	chr13:80512487-80613204	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Strong transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv900592	chr13:80512487-80715893	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:80560200-80565000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr13:80560400-80563200	Enhancers	Muscle Satellite Cultured Cells	--
3	chr13:80560400-80564800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr13:80560400-80564800	Enhancers	HMEC	breast
5	chr13:80560400-80565200	Enhancers	NHDF-Ad	bronchial
6	chr13:80560600-80561400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr13:80560600-80561600	Enhancers	Sigmoid Colon	Sigmoid Colon
8	chr13:80560600-80562200	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr13:80560600-80562800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr13:80560600-80562800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr13:80560600-80563200	Enhancers	Stomach Mucosa	stomach
12	chr13:80560600-80563400	Enhancers	NHEK	skin
13	chr13:80560600-80563800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr13:80560600-80564600	Enhancers	NHLF	lung
15	chr13:80560600-80565200	Enhancers	Hela-S3	cervix
16	chr13:80560800-80563400	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr13:80560800-80563800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr13:80560800-80564000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr13:80561000-80561400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr13:80561000-80561400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr13:80561000-80561400	Enhancers	HSMM	muscle
22	chr13:80561000-80562600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr13:80561200-80561800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr13:80561200-80561800	Enhancers	HSMMtube	muscle
25	chr13:80561200-80561800	Enhancers	Osteobl	bone
26	chr13:80561200-80565400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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