Variant report

Variant	rs525403
Chromosome Location	chr15:43535096-43535097
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11070389	0.82[CHB][hapmap]
rs11632120	0.86[CHB][hapmap]
rs12913112	0.82[CHB][hapmap]
rs12913134	0.81[CHB][hapmap]
rs2139651	0.86[CHB][hapmap];0.82[MEX][hapmap]
rs489964	0.88[CEU][hapmap];0.86[CHB][hapmap];0.87[MEX][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4923956	0.82[CHB][hapmap]
rs502157	0.88[CEU][hapmap];0.86[CHB][hapmap];0.87[MEX][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs530118	0.88[CEU][hapmap]
rs531598	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs574531	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7166467	0.84[CEU][hapmap];0.86[CHB][hapmap];0.86[MEX][hapmap]

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	nsv1044522	chr15:43115348-43658417	Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv1044508	chr15:43270637-43658417	Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs525403	TGM5	cis	Lymphoblastoid	GTEx
rs525403	TYRO3	cis	parietal	SCAN
rs525403	TGM5	cis	lymphoblastoid	seeQTL
rs525403	CCNDBP1	cis	multi-tissue	Pritchard
rs525403	CCNDBP1	cis	Lymphoblastoid	GTEx
rs525403	C15orf52	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:43531600-43536400	Weak transcription	Esophagus	oesophagus
2	chr15:43532200-43537600	Weak transcription	Spleen	Spleen
3	chr15:43532600-43541600	Weak transcription	K562	blood
4	chr15:43533000-43535200	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr15:43534600-43535200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr15:43535000-43535200	Enhancers	Lung	lung
7	chr15:43535000-43535200	Enhancers	Psoas Muscle	Psoas

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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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