Variant report

Variant	rs3745955
Chromosome Location	chr19:38858062-38858063
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:4)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:4 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	YY1	chr19:38857799-38858083	HepG2	liver:	n/a	n/a
2	GABPA	chr19:38857788-38858075	HepG2	liver:	n/a	n/a
3	GABPA	chr19:38857787-38858088	HepG2	liver:	n/a	n/a
4	NR2C2	chr19:38857765-38858140	HepG2	liver:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:38825781..38827790-chr19:38857825..38859729,2	K562	blood:
2	chr19:38856161..38860758-chr19:38862058..38866841,9	MCF-7	breast:
3	chr19:38852371..38854789-chr19:38855847..38858452,2	MCF-7	breast:
4	chr19:38847354..38850144-chr19:38856226..38859199,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000266963	TF binding region
ENSG00000099341	Chromatin interaction
ENSG00000266963	Chromatin interaction
ENSG00000099338	Chromatin interaction

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs11083454	0.80[EUR][1000 genomes]
rs11538289	0.80[EUR][1000 genomes]
rs12460181	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12460264	0.93[ASN][1000 genomes]
rs12460599	0.95[ASN][1000 genomes]
rs12461248	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12461700	0.93[ASN][1000 genomes]
rs12462230	0.84[ASN][1000 genomes]
rs12463175	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2072350	0.92[ASN][1000 genomes]
rs2074979	0.89[ASN][1000 genomes]
rs2074980	0.89[ASN][1000 genomes]
rs2286547	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2286550	0.99[ASN][1000 genomes]
rs2286551	0.89[ASN][1000 genomes]
rs2302226	0.96[ASN][1000 genomes]
rs2302228	0.80[EUR][1000 genomes]
rs35848839	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3745956	0.84[ASN][1000 genomes]
rs3745960	0.84[ASN][1000 genomes]
rs3745961	0.84[ASN][1000 genomes]
rs3745962	0.87[ASN][1000 genomes]
rs3745963	0.80[EUR][1000 genomes]
rs3760884	0.80[EUR][1000 genomes]
rs59491640	0.80[EUR][1000 genomes]
rs60577771	0.95[ASN][1000 genomes]
rs60759642	0.91[ASN][1000 genomes]
rs60915799	0.95[ASN][1000 genomes]
rs61379500	0.95[ASN][1000 genomes]
rs6508792	0.80[EUR][1000 genomes]
rs6508793	0.80[EUR][1000 genomes]
rs7245668	0.80[EUR][1000 genomes]
rs7246085	0.80[EUR][1000 genomes]
rs7246191	0.80[EUR][1000 genomes]
rs7246213	0.80[EUR][1000 genomes]
rs7248540	0.80[EUR][1000 genomes]
rs7248780	0.80[EUR][1000 genomes]
rs7257976	0.80[EUR][1000 genomes]
rs73043030	0.80[EUR][1000 genomes]
rs73043033	0.80[EUR][1000 genomes]
rs73043098	0.83[EUR][1000 genomes]
rs73044905	0.80[EUR][1000 genomes]
rs73044908	0.80[EUR][1000 genomes]
rs73044911	0.80[EUR][1000 genomes]
rs73044915	0.80[EUR][1000 genomes]
rs73044917	0.80[EUR][1000 genomes]
rs73044919	0.80[EUR][1000 genomes]
rs73044926	0.80[EUR][1000 genomes]
rs73044928	0.80[EUR][1000 genomes]
rs73044930	0.80[EUR][1000 genomes]
rs73044932	0.80[EUR][1000 genomes]
rs73044937	0.80[EUR][1000 genomes]
rs73044940	0.81[EUR][1000 genomes]
rs73044942	0.80[EUR][1000 genomes]
rs73044944	0.80[EUR][1000 genomes]
rs73044946	0.80[EUR][1000 genomes]
rs73044947	0.80[EUR][1000 genomes]
rs73044948	0.80[EUR][1000 genomes]
rs73044953	0.80[EUR][1000 genomes]
rs8108440	0.80[EUR][1000 genomes]
rs8109713	0.80[EUR][1000 genomes]
rs8112499	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1063471	chr19:38734744-39148392	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	73 gene(s)	inside rSNPs	diseases
2	nsv833822	chr19:38760748-38945105	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
3	nsv911658	chr19:38785318-39002140	Genic enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases
4	nsv470140	chr19:38840139-39119494	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
5	nsv911659	chr19:38852357-39002140	Active TSS Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
6	nsv911660	chr19:38852357-39060238	Flanking Active TSS Bivalent Enhancer Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
7	nsv833823	chr19:38855550-39035800	Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38853800-38864400	Weak transcription	A549	lung
2	chr19:38857600-38858600	Flanking Active TSS	HepG2	liver
3	chr19:38857800-38859200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr19:38858000-38858200	Active TSS	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links