Variant report

Variant	rs55843545
Chromosome Location	chr3:54035492-54035493
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	chr3:54027788..54029869-chr3:54035000..54037440,2	K562	blood:

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs12185922	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2359784	1.00[ASN][1000 genomes]
rs4345101	1.00[ASN][1000 genomes]
rs4352397	1.00[ASN][1000 genomes]
rs4458365	1.00[ASN][1000 genomes]
rs4928007	1.00[ASN][1000 genomes]
rs55998910	0.89[EUR][1000 genomes]
rs56127699	0.92[EUR][1000 genomes]
rs56265032	0.91[EUR][1000 genomes]
rs62253014	0.88[EUR][1000 genomes]
rs62253020	0.92[EUR][1000 genomes]
rs62253023	0.92[EUR][1000 genomes]
rs62253026	0.92[EUR][1000 genomes]
rs62253027	0.92[EUR][1000 genomes]
rs62255061	0.82[EUR][1000 genomes]
rs62255068	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6445631	1.00[ASN][1000 genomes]
rs6795550	1.00[ASN][1000 genomes]
rs72976725	1.00[ASN][1000 genomes]
rs73080016	0.91[EUR][1000 genomes]
rs73081940	0.84[AMR][1000 genomes]
rs73083991	1.00[ASN][1000 genomes]
rs7649696	1.00[ASN][1000 genomes]
rs9829714	1.00[ASN][1000 genomes]
rs9844833	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003621	chr3:53448934-54425322	Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv1006990	chr3:53849510-54285212	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1014752	chr3:53912429-54123246	Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv1005411	chr3:53927782-54158638	Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1014595	chr3:53944473-54846754	Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs55843545	SELK	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:54031400-54039400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:54033400-54036600	Weak transcription	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links