Variant report

Variant	rs7554996
Chromosome Location	chr1:185801124-185801125
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs12239002	1.00[MEX][hapmap]
rs1407428	1.00[MEX][hapmap]
rs16824465	1.00[MEX][hapmap]
rs28477118	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs28510615	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs55731570	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56100961	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs56347630	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs56881574	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs58375153	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59024653	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59660733	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60307030	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6425006	1.00[MEX][hapmap]
rs6657554	1.00[MEX][hapmap]
rs6676349	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6689228	1.00[MEX][hapmap];0.83[YRI][hapmap]
rs6690559	1.00[MEX][hapmap]
rs6696804	1.00[MEX][hapmap]
rs73060487	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73070527	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73072012	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73072023	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73072049	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73072063	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73072067	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73072075	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74135337	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs74135346	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs74135359	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs74135362	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs74135365	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7520805	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7540773	1.00[MEX][hapmap]
rs7544394	0.91[AFR][1000 genomes];0.87[AMR][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	nsv548398	chr1:185136458-186003094	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	esv3424090	chr1:185679718-186270877	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7554996	PLA2G4A	cis	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:185795800-185803400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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