Variant report

Variant	rs61301417
Chromosome Location	chr3:143097817-143097818
allele	C/T
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	CEBPB	chr3:143097592-143097840	HepG2	liver:	n/a	chr3:143097712-143097723

Variant related genes	Relation type
SLC9A9-AS2	TF binding region

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10513200	0.96[ASN][1000 genomes]
rs10513201	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10935491	0.97[ASN][1000 genomes]
rs10935492	0.96[ASN][1000 genomes]
rs11707045	0.96[ASN][1000 genomes]
rs11707857	0.97[ASN][1000 genomes]
rs11719681	0.96[ASN][1000 genomes]
rs16846341	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16853522	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16853578	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17757146	0.96[ASN][1000 genomes]
rs17757182	0.96[ASN][1000 genomes]
rs1875459	0.96[ASN][1000 genomes]
rs2360255	0.97[ASN][1000 genomes]
rs35233571	0.97[ASN][1000 genomes]
rs35358995	0.90[ASN][1000 genomes]
rs36125349	0.96[ASN][1000 genomes]
rs4311209	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4521222	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56080141	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56152928	0.97[ASN][1000 genomes]
rs6770293	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6782465	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73144740	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73144743	0.95[ASN][1000 genomes]
rs73144745	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73144749	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73144760	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73144769	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73144770	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73144771	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73144772	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73144773	0.97[ASN][1000 genomes]
rs73144774	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73144777	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7374585	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7617737	0.96[ASN][1000 genomes]
rs7627844	0.96[ASN][1000 genomes]
rs7652087	0.96[ASN][1000 genomes]
rs7652557	0.96[ASN][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	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	esv2757894	chr3:142992697-143285979	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv2759184	chr3:142992697-143285979	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv877564	chr3:143059952-143116883	Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv877565	chr3:143078986-143116883	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv999000	chr3:143086325-143136128	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143071600-143102400	Weak transcription	Esophagus	oesophagus
2	chr3:143072000-143099400	Weak transcription	Ovary	ovary
3	chr3:143077400-143104800	Weak transcription	Brain Hippocampus Middle	brain
4	chr3:143082400-143102200	Weak transcription	Primary B cells from cord blood	blood
5	chr3:143083400-143098000	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr3:143085800-143103200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr3:143088800-143099800	Weak transcription	Aorta	Aorta
8	chr3:143094000-143099400	Weak transcription	Spleen	Spleen
9	chr3:143094000-143099600	Weak transcription	Adipose Nuclei	Adipose
10	chr3:143096000-143098200	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr3:143096800-143098600	Enhancers	Dnd41	blood
12	chr3:143097000-143100000	Weak transcription	Gastric	stomach
13	chr3:143097200-143098000	Enhancers	Primary T killer memory cells from peripheral blood	blood
14	chr3:143097200-143098200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr3:143097600-143101000	Weak transcription	Fetal Lung	lung
16	chr3:143097800-143098200	Weak transcription	Fetal Thymus	thymus
17	chr3:143097800-143100000	Weak transcription	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links