Variant report

Variant	rs6665365
Chromosome Location	chr1:212888694-212888695
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:212882006..212883516-chr1:212887747..212889401,2	K562	blood:

Extended variants
information (count: 63 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1046083	0.83[ASN][1000 genomes]
rs10863988	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10863989	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs11120001	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs11120006	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11120007	0.83[ASN][1000 genomes]
rs11120010	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11120014	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11120018	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11800642	0.83[ASN][1000 genomes]
rs11806535	0.81[ASN][1000 genomes]
rs11808846	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11810895	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs11811017	0.81[ASN][1000 genomes]
rs12119531	0.88[ASN][1000 genomes]
rs12125867	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12128903	0.83[ASN][1000 genomes]
rs12129465	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12133174	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12139618	0.88[ASN][1000 genomes]
rs12145131	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12404618	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12404885	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12409787	0.93[EUR][1000 genomes]
rs12729663	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1507357	0.81[ASN][1000 genomes]
rs1507358	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1857971	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2135823	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2174780	0.83[ASN][1000 genomes]
rs2174781	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2271148	0.83[ASN][1000 genomes]
rs2358899	0.81[ASN][1000 genomes]
rs28872849	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3738798	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs58203936	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs59231663	0.83[ASN][1000 genomes]
rs60308869	0.83[ASN][1000 genomes]
rs61736926	0.87[ASN][1000 genomes]
rs6540760	0.83[ASN][1000 genomes]
rs6540762	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6657089	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6662981	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6664049	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6681171	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6694448	0.83[ASN][1000 genomes]
rs6702101	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73081830	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73081853	0.81[ASN][1000 genomes]
rs73083705	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7525518	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7527216	0.83[ASN][1000 genomes]
rs7536456	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7536629	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7537598	0.95[ASN][1000 genomes]
rs7546462	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7546564	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7546754	0.83[ASN][1000 genomes]
rs7550288	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7552899	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013110	chr1:212555764-212948092	Flanking Active TSS Bivalent/Poised TSS Strong transcription Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases
2	nsv535287	chr1:212555764-212948092	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases
3	nsv549148	chr1:212876902-212962207	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs6665365	TATDN3	cis	Artery Tibial	GTEx
rs6665365	TATDN3	cis	Adipose Subcutaneous	GTEx
rs6665365	FLVCR1	Cis_1M	lymphoblastoid	RTeQTL
rs6665365	TATDN3	cis	Esophagus Muscularis	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:212886400-212891800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:212886400-212894400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr1:212886600-212894400	Weak transcription	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links