Variant report

Variant	rs10426078
Chromosome Location	chr19:21152367-21152368
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOSL2	chr19:21152349-21152585	HepG2	liver:	n/a	n/a
2	JUND	chr19:21152363-21152563	HepG2	liver:	n/a	chr19:21152458-21152469

Variant related genes	Relation type
ENSG00000268326	TF binding region

Extended variants
information (count: 63 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10405074	0.99[ASN][1000 genomes]
rs10412338	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10412523	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10414014	0.99[ASN][1000 genomes]
rs10416206	0.97[ASN][1000 genomes]
rs10418943	0.99[ASN][1000 genomes]
rs10419167	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10420060	0.99[ASN][1000 genomes]
rs10420272	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10420474	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10422272	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10422308	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10426307	1.00[ASN][1000 genomes]
rs10500214	0.82[MEX][hapmap]
rs11085403	0.96[ASN][1000 genomes]
rs13343465	1.00[ASN][1000 genomes]
rs13345292	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13345335	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1465429	0.96[ASN][1000 genomes]
rs16997414	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16997443	0.99[ASN][1000 genomes]
rs16997445	0.97[ASN][1000 genomes]
rs1985456	0.99[ASN][1000 genomes]
rs2042265	0.99[ASN][1000 genomes]
rs55965424	0.99[ASN][1000 genomes]
rs56142010	0.81[ASN][1000 genomes]
rs59841381	0.99[ASN][1000 genomes]
rs59964227	0.91[ASN][1000 genomes]
rs59977060	0.82[ASN][1000 genomes]
rs60548145	0.96[ASN][1000 genomes]
rs60969663	0.83[ASN][1000 genomes]
rs61385453	0.99[ASN][1000 genomes]
rs62123184	0.96[ASN][1000 genomes]
rs62123185	0.96[ASN][1000 genomes]
rs62123201	0.96[ASN][1000 genomes]
rs62123213	0.96[ASN][1000 genomes]
rs62123220	0.96[ASN][1000 genomes]
rs62123227	0.91[ASN][1000 genomes]
rs62123229	0.96[ASN][1000 genomes]
rs62123230	0.96[ASN][1000 genomes]
rs62123239	0.96[ASN][1000 genomes]
rs62123244	0.96[ASN][1000 genomes]
rs62123245	0.96[ASN][1000 genomes]
rs62123246	0.96[ASN][1000 genomes]
rs62123247	0.90[ASN][1000 genomes]
rs62124024	0.96[ASN][1000 genomes]
rs62124028	0.99[ASN][1000 genomes]
rs62124029	0.99[ASN][1000 genomes]
rs62124030	0.93[ASN][1000 genomes]
rs62124032	0.99[ASN][1000 genomes]
rs62125465	0.96[ASN][1000 genomes]
rs73530516	0.84[ASN][1000 genomes]
rs73927842	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752729	chr19:20818886-21169554	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1062776	chr19:20818886-21273361	Weak transcription Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv932110	chr19:20818886-21278952	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	esv2763043	chr19:20818886-21290543	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	nsv1063954	chr19:21000562-21177577	Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	esv3385528	chr19:21030777-21495566	Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
7	nsv817536	chr19:21041855-21348237	Strong transcription Enhancers Genic enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
8	esv1850387	chr19:21109758-21294264	Active TSS ZNF genes & repeats Strong transcription Genic enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
9	nsv1055484	chr19:21141787-21158134	Weak transcription ZNF genes & repeats Enhancers	TF binding region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv515577	chr19:21152367-21164399	Enhancers Weak transcription	TF binding region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs10426078	USHBP1	cis	cerebellum	SCAN
rs10426078	ZNF85	Cis_1M	lymphoblastoid	RTeQTL
rs10426078	ZNF429	cis	parietal	SCAN
rs10426078	ZNF682	cis	parietal	SCAN
rs10426078	ZNF429	cis	cerebellum	SCAN
rs10426078	ZNF506	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:21152000-21152400	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links