Variant report

Variant	rs4466023
Chromosome Location	chr4:153093492-153093493
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	chr4:153087991..153090711-chr4:153090744..153093501,2	MCF-7	breast:
2	chr4:153092306..153094801-chr4:153095527..153097409,2	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs4619874	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6811845	0.93[AMR][1000 genomes]
rs6811999	0.93[AMR][1000 genomes]
rs6812249	0.93[AMR][1000 genomes]
rs6842023	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72734255	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs72734257	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72734263	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72734266	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72734273	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72734277	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72734278	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72734279	0.81[EUR][1000 genomes]
rs72734280	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72734282	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72734284	0.81[EUR][1000 genomes]
rs72734285	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72734287	0.82[EUR][1000 genomes]
rs72734288	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72734291	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72734292	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72734294	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72734295	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72734298	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72734299	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72734302	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72736205	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72736206	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72736213	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72736216	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72736218	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72736224	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72953090	0.87[AFR][1000 genomes]
rs72953091	0.92[AFR][1000 genomes]
rs72953095	0.95[AFR][1000 genomes]
rs7682988	0.93[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880341	chr4:152861685-153110256	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv931416	chr4:152877808-153440553	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer 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 miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv880774	chr4:153035743-153121818	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv968016	chr4:153090362-153094972	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4466023	TMEM154	cis	parietal	SCAN
rs4466023	DCLK2	cis	cerebellum	SCAN
rs4466023	FGB	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:153086000-153094400	Weak transcription	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links