Variant report

Variant	rs2844773
Chromosome Location	chr6:30207495-30207496
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs17188470	1.00[ASN][1000 genomes]
rs17194789	1.00[ASN][1000 genomes]
rs17194852	1.00[ASN][1000 genomes]
rs17194859	1.00[ASN][1000 genomes]
rs2188100	0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2517612	0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2517613	0.83[EUR][1000 genomes]
rs2517615	0.83[EUR][1000 genomes]
rs2523715	0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2523719	0.84[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs2523720	0.83[EUR][1000 genomes]
rs2844770	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2844771	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3094070	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3094071	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3094072	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3094073	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3094074	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3094076	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3094077	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3094629	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3094630	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3094632	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3129697	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3129699	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3129700	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3129701	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3129702	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3129703	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3129704	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3129705	0.81[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3129706	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs3129707	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3129708	0.83[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs3129831	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs3129832	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs3129835	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs3129836	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3129837	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3129840	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3130398	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3130400	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3130401	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3130403	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3130404	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3130405	0.93[EUR][1000 genomes]
rs3132650	0.85[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs3132655	0.82[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3132656	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3132657	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3132658	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3132659	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs885913	0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs885916	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9261629	0.84[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs9261630	0.84[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs9261636	0.87[AFR][1000 genomes];0.90[EUR][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	esv3412822	chr6:30207123-30209221	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
2	esv2428476	chr6:30207271-30208835	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs2844773	HLA-C	Cis_chr	lymphoblastoid	RTeQTL
rs2844773	ZNF323	cis	parietal	SCAN
rs2844773	ZKSCAN3	cis	parietal	SCAN
rs2844773	BTN2A1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30205600-30213000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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