Variant report

Variant	rs362546
Chromosome Location	chr6:29499416-29499417
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:3)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:29483683..29485672-chr6:29497592..29500057,2	K562	blood:
2	chr6:29232193..29235031-chr6:29499075..29500659,2	K562	blood:
3	chr6:29498758..29502303-chr6:29502366..29506492,4	K562	blood:

(count:3 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-OR2H2-2	chr6:29498829-29501345	ENSG00000224582.1
2	lnc-OR2H2-2	chr6:29498829-29501345	NONHSAT108525
3	lnc-OR2H2-2	chr6:29498829-29501345	NONHSAT108526

No data

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1073339	0.90[EUR][1000 genomes]
rs1073340	0.90[EUR][1000 genomes]
rs11724	0.91[EUR][1000 genomes]
rs1233418	0.86[EUR][1000 genomes]
rs1233421	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1233422	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1233423	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1233425	0.92[EUR][1000 genomes]
rs1233426	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1233427	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1592409	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2223611	0.91[EUR][1000 genomes]
rs2523425	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2523427	0.90[EUR][1000 genomes]
rs2523429	0.82[EUR][1000 genomes]
rs2745401	0.80[EUR][1000 genomes]
rs2745402	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2745403	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2745406	0.91[EUR][1000 genomes]
rs2745408	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2745409	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2745411	0.86[EUR][1000 genomes]
rs362513	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs362514	0.91[EUR][1000 genomes]
rs362540	0.82[EUR][1000 genomes]
rs362544	0.92[EUR][1000 genomes]
rs378956	0.84[EUR][1000 genomes]
rs394075	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs399166	0.88[EUR][1000 genomes]
rs414282	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs414390	0.86[EUR][1000 genomes]
rs417374	0.84[EUR][1000 genomes]
rs419957	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs422241	0.86[EUR][1000 genomes]
rs422302	0.82[EUR][1000 genomes]
rs444013	0.91[EUR][1000 genomes]
rs446198	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs453658	0.91[EUR][1000 genomes]
rs909967	0.92[EUR][1000 genomes]
rs909968	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs969931	0.90[EUR][1000 genomes]
rs9968	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3424039	chr6:29439297-29504564	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv601228	chr6:29496220-29500287	Enhancers Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv10807	chr6:29498328-29501339	Weak transcription Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs362546	SNX31	trans	parietal	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29497000-29515000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:29498800-29500000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
3	chr6:29498800-29500200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:29499000-29499600	Enhancers	Pancreas	Pancrea
5	chr6:29499000-29499600	Enhancers	NHEK	skin

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