Variant report

Variant	rs4361604
Chromosome Location	chr6:49078343-49078344
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 4 )

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

rs_ID	r²[population]
rs11751315	1.00[AFR][1000 genomes]
rs11755620	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11756426	1.00[AFR][1000 genomes]
rs28502322	1.00[AFR][1000 genomes]
rs28790383	1.00[AFR][1000 genomes]
rs4526194	1.00[AFR][1000 genomes]
rs4562139	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56104201	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs67397040	0.80[EUR][1000 genomes]
rs6915262	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72865017	1.00[AFR][1000 genomes]
rs72866829	1.00[AFR][1000 genomes]
rs72866872	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72868420	0.87[EUR][1000 genomes]
rs72868451	0.85[EUR][1000 genomes]
rs7744544	0.85[EUR][1000 genomes]
rs9349476	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9349479	0.84[EUR][1000 genomes]
rs9357597	1.00[AFR][1000 genomes]
rs9357600	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9357606	0.85[EUR][1000 genomes]
rs9369843	1.00[AFR][1000 genomes]
rs9369852	1.00[AFR][1000 genomes]
rs9369863	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9369864	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9381725	1.00[AFR][1000 genomes]
rs9381737	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9381738	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9381742	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9381750	0.85[EUR][1000 genomes]
rs9381752	0.83[EUR][1000 genomes]
rs9395447	1.00[AFR][1000 genomes]
rs9395450	1.00[AFR][1000 genomes]
rs9395456	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9395473	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949690	chr6:48595821-49289855	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv603049	chr6:48931959-49169337	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv885880	chr6:48975662-49102186	Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs4361604	MUT	cis	cerebellum	SCAN
rs4361604	SLC25A27	cis	cerebellum	SCAN
rs4361604	MUT	cis	lymphoblastoid	seeQTL
rs4361604	C6orf138	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:49040400-49089600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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