Variant report

Variant	rs9545142
Chromosome Location	chr13:80162555-80162556
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1208049	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1212082	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1335368	0.80[ASN][1000 genomes]
rs1408049	0.83[ASN][1000 genomes]
rs1414155	0.83[ASN][1000 genomes]
rs1414156	0.83[ASN][1000 genomes]
rs1475797	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1577416	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2065743	0.83[ASN][1000 genomes]
rs2181433	0.94[ASN][1000 genomes]
rs2476172	0.89[ASN][1000 genomes]
rs2476173	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2484343	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2484344	0.92[ASN][1000 genomes]
rs2484345	0.81[AMR][1000 genomes]
rs2760101	0.82[ASN][1000 genomes]
rs2760102	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2760103	0.81[ASN][1000 genomes]
rs2760105	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2760106	0.82[ASN][1000 genomes]
rs2783119	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2783120	0.82[ASN][1000 genomes]
rs2783121	0.82[ASN][1000 genomes]
rs2783122	0.82[ASN][1000 genomes]
rs2783125	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2783126	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2783127	0.92[ASN][1000 genomes]
rs314688	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4885633	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4885634	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4885636	0.80[ASN][1000 genomes]
rs6563110	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6563113	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6563115	0.82[ASN][1000 genomes]
rs6563116	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs700396	0.82[ASN][1000 genomes]
rs7321953	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73235963	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7325095	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7338530	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7339303	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7982263	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7988601	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8002042	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9318644	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9530922	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9530925	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9565510	0.82[ASN][1000 genomes]
rs9574434	0.81[ASN][1000 genomes]
rs9601240	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9601242	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs987284	0.83[ASN][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	nsv916983	chr13:80065879-80249702	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv1041994	chr13:80123596-80247708	Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9545142	RP11-25J23.3	cis	Thyroid	GTEx
rs9545142	RBM26	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:80159600-80163000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr13:80160400-80163000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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