Variant report

Variant	rs56779007
Chromosome Location	chr3:100234987-100234988
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10936221	0.91[AFR][1000 genomes]
rs12639465	0.94[ASN][1000 genomes]
rs4073343	0.92[AFR][1000 genomes]
rs56402168	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60272820	0.97[ASN][1000 genomes]
rs62276556	0.97[ASN][1000 genomes]
rs62276559	0.97[ASN][1000 genomes]
rs6441300	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66791174	0.97[ASN][1000 genomes]
rs67600559	0.97[ASN][1000 genomes]
rs6777810	0.90[AFR][1000 genomes]
rs6798264	0.97[ASN][1000 genomes]
rs7650523	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7653196	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9810780	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9813069	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][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
rs56779007	TMEM45A	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100225400-100236800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:100225800-100235000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:100227200-100239400	Weak transcription	Ovary	ovary
4	chr3:100227400-100239400	Weak transcription	Aorta	Aorta
5	chr3:100227400-100239400	Weak transcription	Fetal Stomach	stomach
6	chr3:100227600-100236200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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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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