Variant report

Variant	rs368292
Chromosome Location	chr4:48312672-48312673
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:48312456..48314197-chr4:48341222..48342911,2	K562	blood:
2	chr4:48299110..48301166-chr4:48311658..48313371,2	K562	blood:

Extended variants
information (count: 54 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10433686	1.00[CEU][hapmap];0.83[JPT][hapmap]
rs10433724	1.00[CEU][hapmap];0.80[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes]
rs11723080	0.80[GIH][hapmap]
rs11724334	0.83[EUR][1000 genomes]
rs11732570	0.84[EUR][1000 genomes]
rs11932069	0.84[EUR][1000 genomes]
rs11934137	0.84[EUR][1000 genomes]
rs12233640	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12499189	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13143606	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1509655	0.82[EUR][1000 genomes]
rs170145	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1828297	0.82[EUR][1000 genomes]
rs1848742	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1912162	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2136503	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.96[MEX][hapmap];0.95[TSI][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2353304	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2664024	1.00[CEU][hapmap];0.80[AMR][1000 genomes]
rs2664027	0.81[AMR][1000 genomes]
rs2704409	0.80[AMR][1000 genomes]
rs309883	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs309891	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs309892	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs373720	0.87[AMR][1000 genomes]
rs379323	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs430599	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4529022	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4694892	0.81[EUR][1000 genomes]
rs55656036	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56041079	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56063319	0.84[EUR][1000 genomes]
rs58166553	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs58372912	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs59349478	0.84[EUR][1000 genomes]
rs59741528	0.83[EUR][1000 genomes]
rs59896383	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62309361	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62309362	0.84[EUR][1000 genomes]
rs62311478	0.84[EUR][1000 genomes]
rs62311498	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6447626	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6447627	0.81[EUR][1000 genomes]
rs6840958	0.82[EUR][1000 genomes]
rs6852406	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6858850	0.81[EUR][1000 genomes]
rs7657451	0.82[EUR][1000 genomes]
rs7659044	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7665958	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7666809	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7688059	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7693991	0.88[AMR][1000 genomes];0.84[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	nsv482316	chr4:48151953-48338746	Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv1006610	chr4:48209294-48415387	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv537085	chr4:48209294-48415387	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs368292	TEC	cis	parietal	SCAN
rs368292	TXK	cis	parietal	SCAN
rs368292	SLAIN2	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:48309000-48313800	Weak transcription	K562	blood
2	chr4:48312600-48312800	Enhancers	Fetal Brain Male	brain

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