Variant report

Variant	rs7544340
Chromosome Location	chr1:179455645-179455646
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 88 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10798674	0.80[JPT][hapmap]
rs10913786	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10913787	0.82[EUR][1000 genomes]
rs10913793	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10913795	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10913797	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10913801	0.86[CHB][hapmap]
rs11585043	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11589032	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11809606	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12078410	0.91[ASN][1000 genomes]
rs12133017	0.93[CHB][hapmap];0.93[JPT][hapmap]
rs12136977	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs12137397	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12138189	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12138249	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12141674	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12141677	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12407885	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12568706	0.95[YRI][hapmap]
rs12724074	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12734672	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12737743	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12760068	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1576225	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap]
rs1590786	0.86[CHB][hapmap]
rs2225213	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs34041685	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34878773	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34890906	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36027796	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36070349	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3898486	0.86[CHB][hapmap]
rs4651038	0.86[CHB][hapmap]
rs6425567	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6425568	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6668035	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6670182	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6672804	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6674274	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs6677867	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6678546	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6681136	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6681518	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6691184	0.80[JPT][hapmap]
rs6702905	0.86[CHB][hapmap]
rs67526731	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7535800	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7546457	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs962427	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs962429	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs9786979	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9786993	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9787089	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9787118	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs9787120	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:32 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv466217	chr1:179371973-179477921	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv548297	chr1:179371973-179477921	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1009624	chr1:179423063-179459676	Enhancers ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
4	nsv1011557	chr1:179426390-179459460	Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
5	nsv548299	chr1:179452695-179456776	Enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
6	nsv548300	chr1:179452695-179457436	Enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
7	esv3320859	chr1:179453629-179458627	Enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
8	esv3505460	chr1:179454429-179459077	Inactive region	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
9	esv3505459	chr1:179454879-179459677	Inactive region	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
10	esv3320857	chr1:179455462-179458414	Inactive region	TF binding region	2 gene(s)	inside rSNPs	n/a
11	esv3505457	chr1:179455497-179458356	Inactive region	TF binding region	2 gene(s)	inside rSNPs	n/a
12	esv3505458	chr1:179455500-179458378	Inactive region	TF binding region	2 gene(s)	inside rSNPs	n/a
13	esv3320858	chr1:179455507-179458393	Inactive region	TF binding region	2 gene(s)	inside rSNPs	n/a
14	esv3320856	chr1:179455516-179458393	Inactive region	TF binding region	2 gene(s)	inside rSNPs	n/a
15	esv3505461	chr1:179455526-179458345	Inactive region	TF binding region	2 gene(s)	inside rSNPs	n/a
16	esv3320860	chr1:179455595-179458301	Inactive region	TF binding region	2 gene(s)	inside rSNPs	n/a
17	esv3505462	chr1:179455595-179458301	Inactive region	TF binding region	2 gene(s)	inside rSNPs	n/a
18	esv11393	chr1:179455634-179458332	Inactive region	TF binding region	2 gene(s)	inside rSNPs	n/a
19	nsv548301	chr1:179455645-179456812	Inactive region	TF binding region	1 gene(s)	inside rSNPs	n/a
20	nsv548302	chr1:179455645-179456967	Inactive region	TF binding region	1 gene(s)	inside rSNPs	n/a
21	nsv548303	chr1:179455645-179457124	Inactive region	TF binding region	1 gene(s)	inside rSNPs	n/a
22	nsv548304	chr1:179455645-179457309	Inactive region	TF binding region	1 gene(s)	inside rSNPs	n/a
23	esv1825502	chr1:179455645-179457436	Inactive region	TF binding region	1 gene(s)	inside rSNPs	n/a
24	nsv548305	chr1:179455645-179457436	Inactive region	TF binding region	1 gene(s)	inside rSNPs	n/a
25	nsv548306	chr1:179455645-179457618	Inactive region	TF binding region	1 gene(s)	inside rSNPs	n/a
26	nsv548307	chr1:179455645-179457732	Inactive region	TF binding region	1 gene(s)	inside rSNPs	n/a
27	nsv548308	chr1:179455645-179457914	Inactive region	TF binding region	2 gene(s)	inside rSNPs	n/a
28	nsv548309	chr1:179455645-179458073	Inactive region	TF binding region	2 gene(s)	inside rSNPs	n/a
29	nsv548310	chr1:179455645-179458205	Inactive region	TF binding region	2 gene(s)	inside rSNPs	n/a
30	esv1827311	chr1:179455645-179458821	Inactive region	TF binding region	2 gene(s)	inside rSNPs	n/a
31	esv1826150	chr1:179455645-179469253	Inactive region	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
32	esv1820823	chr1:179455645-179479803	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs7544340	TDRD5	cis	Artery Tibial	GTEx
rs7544340	TDRD5	cis	Adipose Subcutaneous	GTEx
rs7544340	TDRD5	cis	Esophagus Mucosa	GTEx
rs7544340	RP11-545A16.4	cis	Artery Tibial	GTEx
rs7544340	TDRD5	cis	Nerve Tibial	GTEx
rs7544340	RP11-545A16.3	cis	Artery Tibial	GTEx

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

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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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