Variant report

Variant	rs16839491
Chromosome Location	chr3:97982875-97982876
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr3:97982830-97982880	HNPCEpiC	eye:	n/a
2	chr3:97982830-97982880	HL-60	blood:	n/a
3	chr3:97982830-97982880	IMR90	lung:	fetal
4	chr3:97982830-97982880	GM19239	blood:	n/a
5	chr3:97982830-97982880	NHDF-neo	bronchial:	n/a
6	chr3:97982830-97982880	Hela-S3	cervix:	n/a
7	chr3:97982830-97982880	HRCEpiC	kidney:	n/a
8	chr3:97982830-97982880	K562	blood:	n/a
9	chr3:97982830-97982880	HRE	kidney:	n/a
10	chr3:97982830-97982880	NH-A	brain:	n/a
11	chr3:97982830-97982880	HIPEpiC	eye:	n/a
12	chr3:97982830-97982880	HEEpiC	esophagus:	n/a
13	chr3:97982830-97982880	HEK293	kidney:	embryo
14	chr3:97982830-97982880	HepG2	liver:	n/a
15	chr3:97982830-97982880	HCM	heart:	n/a
16	chr3:97982830-97982880	GM12878	blood:	n/a
17	chr3:97982830-97982880	SAEC	small airway:	n/a
18	chr3:97982830-97982880	ovcar-3	ovarian:	n/a
19	chr3:97982830-97982880	Jurkat	blood:	n/a
20	chr3:97982830-97982880	BE2_C	brain:	n/a
21	chr3:97982830-97982880	NB4	blood:	n/a
22	chr3:97982830-97982880	BJ	skin:	n/a
23	chr3:97982830-97982880	SK-N-SH_RA	brain:	n/a
24	chr3:97982830-97982880	H1-hESC	embryonic stem cell:	embryo
25	chr3:97982830-97982880	PFSK-1	brain:	n/a
26	chr3:97982830-97982880	NT2-D1	testis:	n/a
27	chr3:97982830-97982880	SK-N-SH	brain:	n/a
28	chr3:97982830-97982880	CMK	blood:	n/a
29	chr3:97982830-97982880	MCF10A-Er-Src	breast:	n/a
30	chr3:97982830-97982880	HPAEpiC	pulmonary alveolar:	n/a
31	chr3:97982830-97982880	AG10803	skin:	n/a
32	chr3:97982830-97982880	PANC-1	pancreas:	n/a
33	chr3:97982830-97982880	HCPEpiC	choroid plexus:	n/a
34	chr3:97982830-97982880	ECC-1	luminal epithelium:	n/a
35	chr3:97982830-97982880	Hepatocyte	liver:	n/a
36	chr3:97982830-97982880	RPTEC	kidney:	n/a
37	chr3:97982830-97982880	AG04449	skin:	fetal
38	chr3:97982830-97982880	MCF-7	breast:	n/a
39	chr3:97982830-97982880	GM12891	blood:	n/a
40	chr3:97982830-97982880	GM06990	blood:	n/a
41	chr3:97982830-97982880	HCT-116	colon:	n/a
42	chr3:97982830-97982880	AG09319	gingival:	n/a
43	chr3:97982830-97982880	AG04450	lung:	fetal
44	chr3:97982830-97982880	HAEpiC	amniotic membrane:	n/a
45	chr3:97982830-97982880	GM12892	blood:	n/a
46	chr3:97982830-97982880	Caco-2	colon:	n/a
47	chr3:97982830-97982880	HUVEC	blood vessel:	n/a
48	chr3:97982830-97982880	A549	lung:	n/a
49	chr3:97982830-97982880	AG09309	skin:	n/a
50	chr3:97982830-97982880	T-47D	breast:	n/a

No data

Variant related genes	Relation type
OR5H6	CpG island

Extended variants
information (count: 58 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1497536	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs1497543	0.87[AMR][1000 genomes]
rs1497547	1.00[EUR][1000 genomes]
rs1846084	1.00[EUR][1000 genomes]
rs1909001	1.00[EUR][1000 genomes]
rs1909002	1.00[EUR][1000 genomes]
rs4358332	1.00[EUR][1000 genomes]
rs56731928	1.00[EUR][1000 genomes]
rs57153638	0.87[AMR][1000 genomes]
rs57263843	0.87[AMR][1000 genomes]
rs59111149	0.87[AMR][1000 genomes]
rs59124064	1.00[EUR][1000 genomes]
rs59403104	1.00[EUR][1000 genomes]
rs59518469	1.00[EUR][1000 genomes]
rs59576981	0.87[AMR][1000 genomes]
rs59879616	1.00[EUR][1000 genomes]
rs60039150	0.87[AMR][1000 genomes]
rs60579668	1.00[EUR][1000 genomes]
rs60903056	1.00[EUR][1000 genomes]
rs6775472	0.87[AMR][1000 genomes]
rs6779299	0.87[AMR][1000 genomes]
rs6786574	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72922848	1.00[EUR][1000 genomes]
rs72931078	0.87[AMR][1000 genomes]
rs72931079	0.87[AMR][1000 genomes]
rs72931085	1.00[EUR][1000 genomes]
rs72931088	0.87[AMR][1000 genomes]
rs72931090	0.87[AMR][1000 genomes]
rs72931092	0.87[AMR][1000 genomes]
rs72932838	1.00[EUR][1000 genomes]
rs72932841	0.87[AMR][1000 genomes]
rs72932843	1.00[EUR][1000 genomes]
rs72932901	1.00[EUR][1000 genomes]
rs72934924	1.00[EUR][1000 genomes]
rs72934931	1.00[EUR][1000 genomes]
rs72934978	1.00[EUR][1000 genomes]
rs72934981	1.00[EUR][1000 genomes]
rs72937126	1.00[EUR][1000 genomes]
rs73854543	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7609946	0.87[AMR][1000 genomes]
rs7632822	0.87[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869347	chr3:97742604-98051633	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv877209	chr3:97806616-98049409	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv963576	chr3:97825434-98041343	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv1004820	chr3:97852875-98169488	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv834773	chr3:97855362-98043888	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv1000834	chr3:97859880-98095473	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv877210	chr3:97866177-97992964	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
8	nsv432462	chr3:97918267-98001710	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv877212	chr3:97931105-98033400	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	esv1842860	chr3:97934241-98075543	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv1004762	chr3:97935701-98000227	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv1008569	chr3:97937168-97983117	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv1009918	chr3:97946030-98155450	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
14	esv3444875	chr3:97957818-97983549	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	nsv877213	chr3:97973670-97992964	Enhancers ZNF genes & repeats Weak transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	esv3399236	chr3:97977397-97988329	Inactive region	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	nsv963344	chr3:97982307-97983254	Inactive region	CpG island	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16839491	WARS	trans	lymphoblastoid	seeQTL

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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