Variant report

Variant	rs56402168
Chromosome Location	chr3:100236124-100236125
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12639465	0.91[ASN][1000 genomes]
rs56779007	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60272820	0.91[ASN][1000 genomes]
rs62276556	0.90[ASN][1000 genomes]
rs62276559	0.91[ASN][1000 genomes]
rs6441300	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs66791174	0.90[ASN][1000 genomes]
rs67600559	0.91[ASN][1000 genomes]
rs6798264	0.91[ASN][1000 genomes]
rs7650523	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7653196	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9810780	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9813069	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877218	chr3:100176360-100267619	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs56402168	TMEM45A	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100225400-100236800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:100227200-100239400	Weak transcription	Ovary	ovary
3	chr3:100227400-100239400	Weak transcription	Aorta	Aorta
4	chr3:100227400-100239400	Weak transcription	Fetal Stomach	stomach
5	chr3:100227600-100236200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr3:100235000-100237400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:100235000-100238000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr3:100235200-100238400	Enhancers	NHDF-Ad	bronchial
9	chr3:100235200-100242000	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr3:100235400-100237800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr3:100235600-100236600	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr3:100235600-100237400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:100235600-100237800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr3:100235800-100237600	Weak transcription	Osteobl	bone
15	chr3:100235800-100244800	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr3:100236000-100237400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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