Variant report

Variant	rs476167
Chromosome Location	chr6:28065888-28065889
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28064931..28068898-chr6:28069677..28072744,5	K562	blood:
2	chr6:28064830..28067806-chr6:28192889..28194508,2	K562	blood:
3	chr6:28048161..28050087-chr6:28064143..28066720,2	MCF-7	breast:
4	chr6:28056142..28061683-chr6:28062913..28067208,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137185	Chromatin interaction
ENSG00000197279	Chromatin interaction
ENSG00000219891	Chromatin interaction
ENSG00000272009	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 10 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1071893	0.85[EUR][1000 genomes]
rs1150666	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1150678	0.93[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs12173797	0.84[EUR][1000 genomes]
rs1225592	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1225595	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1225716	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1233691	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1233708	0.82[EUR][1000 genomes]
rs149955	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs149958	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs149959	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs149962	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs149965	0.85[EUR][1000 genomes]
rs156738	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs156739	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1631552	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1770131	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs183244	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs188105	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs203876	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs203877	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs203882	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs203883	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs203884	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs203892	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs203893	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2622319	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2791332	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs536704	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9295760	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs476167	OR2B8P	cis	Thyroid	GTEx
rs476167	AL022393.7	cis	Artery Tibial	GTEx
rs476167	OR1F12	cis	Thyroid	GTEx
rs476167	BTN3A2	Cis_chr	lymphoblastoid	RTeQTL
rs476167	AL022393.7	cis	Nerve Tibial	GTEx
rs476167	RP1-265C24.5	cis	Muscle Skeletal	GTEx
rs476167	ZSCAN31	cis	Thyroid	GTEx
rs476167	AL022393.7	cis	Heart Left Ventricle	GTEx
rs476167	AL022393.7	cis	Muscle Skeletal	GTEx
rs476167	RP5-874C20.3	cis	Nerve Tibial	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28058200-28072200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:28058800-28072000	Weak transcription	HMEC	breast
3	chr6:28059200-28066800	Weak transcription	Esophagus	oesophagus
4	chr6:28059400-28072000	Weak transcription	Brain Substantia Nigra	brain
5	chr6:28061400-28072000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr6:28064600-28072200	Weak transcription	Placenta	Placenta

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