Variant report

Variant	rs1573046
Chromosome Location	chr6:119752825-119752826
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	chr6:119751144..119753172-chr6:119756265..119757910,2	K562	blood:
2	chr6:119745246..119748327-chr6:119749609..119753522,3	K562	blood:

Extended variants
information (count: 28 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1021699	0.93[EUR][1000 genomes]
rs10485006	0.90[EUR][1000 genomes]
rs11153825	0.93[EUR][1000 genomes]
rs11153827	0.93[EUR][1000 genomes]
rs11153829	0.90[EUR][1000 genomes]
rs11153830	0.88[EUR][1000 genomes]
rs11153831	0.88[EUR][1000 genomes]
rs11754922	0.93[EUR][1000 genomes]
rs12215748	0.88[EUR][1000 genomes]
rs13191131	0.88[EUR][1000 genomes]
rs13195359	0.94[EUR][1000 genomes]
rs13204761	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13210596	0.89[EUR][1000 genomes]
rs13210710	0.90[EUR][1000 genomes]
rs1341489	0.86[EUR][1000 genomes]
rs1499570	0.92[EUR][1000 genomes]
rs17833823	0.88[EUR][1000 genomes]
rs34729171	0.88[EUR][1000 genomes]
rs36089626	0.82[EUR][1000 genomes]
rs62418737	0.88[EUR][1000 genomes]
rs6913953	0.93[EUR][1000 genomes]
rs951597	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3447598	chr6:119558591-120119384	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	esv3389526	chr6:119558598-120190087	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv1027904	chr6:119709488-120001986	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv533518	chr6:119712186-119998618	ZNF genes & repeats Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv3442553	chr6:119742069-120076777	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	esv1845804	chr6:119747112-119771715	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1573046	ASF1A	cis	cerebellum	SCAN
rs1573046	WDR69	trans	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119748200-119767000	Weak transcription	Colon Smooth Muscle	Colon
2	chr6:119749800-119755000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:119751800-119753000	Enhancers	Placenta	Placenta
4	chr6:119752000-119753400	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr6:119752200-119753000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:119752600-119753000	Enhancers	Placenta Amnion	Placenta Amnion

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links