Variant report

Variant	rs55677942
Chromosome Location	chr3:85639341-85639342
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs11919099	0.86[AFR][1000 genomes]
rs12632674	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12638040	0.86[AFR][1000 genomes]
rs1375550	0.81[AFR][1000 genomes]
rs1375554	0.85[AFR][1000 genomes]
rs1375555	0.85[AFR][1000 genomes]
rs1375565	0.86[AFR][1000 genomes]
rs1375567	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1597315	0.85[AFR][1000 genomes]
rs17022974	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17460541	0.85[AFR][1000 genomes]
rs17460701	0.85[AFR][1000 genomes]
rs17519948	0.85[AFR][1000 genomes]
rs1947221	0.86[AFR][1000 genomes]
rs1972992	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2029130	0.86[AFR][1000 genomes]
rs34495106	0.86[AFR][1000 genomes]
rs4355295	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4508796	0.86[AFR][1000 genomes]
rs4508797	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4856596	0.86[AFR][1000 genomes]
rs57276248	0.85[AFR][1000 genomes]
rs58889493	0.83[AFR][1000 genomes]
rs59211082	0.85[AFR][1000 genomes]
rs59835020	0.85[AFR][1000 genomes]
rs61316596	0.85[AFR][1000 genomes]
rs62250471	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62250491	0.81[AFR][1000 genomes]
rs62250492	0.81[AFR][1000 genomes]
rs62250496	0.82[AFR][1000 genomes]
rs62250500	0.86[AFR][1000 genomes]
rs62250504	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62250540	0.86[AFR][1000 genomes]
rs62253963	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62263910	0.86[AFR][1000 genomes]
rs62263912	0.83[AFR][1000 genomes]
rs6549041	0.84[AFR][1000 genomes]
rs6549042	0.81[AFR][1000 genomes]
rs6762535	0.86[AFR][1000 genomes]
rs6762733	0.86[AFR][1000 genomes]
rs6766690	0.86[AFR][1000 genomes]
rs67874038	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6788098	0.82[AFR][1000 genomes]
rs67904150	0.86[AFR][1000 genomes]
rs6794866	0.84[AFR][1000 genomes]
rs67955391	0.86[AFR][1000 genomes]
rs68001049	0.86[AFR][1000 genomes]
rs6801823	0.85[AFR][1000 genomes]
rs72615728	0.86[AFR][1000 genomes]
rs73137879	0.86[AFR][1000 genomes]
rs73137895	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7616458	0.85[AFR][1000 genomes]
rs7617356	0.84[AFR][1000 genomes]
rs7634761	0.83[AFR][1000 genomes]
rs956281	0.86[AFR][1000 genomes]
rs9713905	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3419993	chr3:85030343-85663403	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1002238	chr3:85357855-85719373	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
3	nsv536619	chr3:85357855-85719373	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
4	nsv590905	chr3:85438564-85797093	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv998829	chr3:85449960-85641099	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv536622	chr3:85449960-85641099	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv526621	chr3:85470642-85667683	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv1009927	chr3:85497666-85669155	Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv1010541	chr3:85505839-85870597	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv536625	chr3:85505839-85870597	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv1006360	chr3:85597755-85683081	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv536629	chr3:85597755-85683081	Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv1011376	chr3:85599411-85657771	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv590907	chr3:85619451-85694987	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv877101	chr3:85619451-85710336	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85634400-85640800	Weak transcription	Brain Anterior Caudate	brain
2	chr3:85638400-85640200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr3:85638400-85642800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:85639200-85643200	Weak transcription	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links