Variant report

Variant	rs7642134
Chromosome Location	chr3:86916882-86916883
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs12497862	0.83[EUR][1000 genomes]
rs13064692	0.83[EUR][1000 genomes]
rs13070989	0.92[EUR][1000 genomes]
rs13082048	0.81[EUR][1000 genomes]
rs13088306	0.83[EUR][1000 genomes]
rs13093618	0.92[EUR][1000 genomes]
rs13097914	0.88[AFR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4859048	0.81[EUR][1000 genomes]
rs6551383	0.83[EUR][1000 genomes]
rs6551384	0.91[EUR][1000 genomes]
rs6551494	0.92[EUR][1000 genomes]
rs6774777	0.80[EUR][1000 genomes]
rs6794181	0.80[EUR][1000 genomes]
rs7426518	0.92[EUR][1000 genomes]
rs7427084	0.92[EUR][1000 genomes]
rs7427577	0.90[EUR][1000 genomes]
rs7428262	0.92[EUR][1000 genomes]
rs7430324	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7433355	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7623510	0.83[EUR][1000 genomes]
rs7630422	0.83[EUR][1000 genomes]
rs7633281	0.91[EUR][1000 genomes]
rs7638201	0.92[EUR][1000 genomes]
rs7643213	0.83[EUR][1000 genomes]
rs7643326	0.81[EUR][1000 genomes]
rs7644095	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7652100	0.90[EUR][1000 genomes]
rs9681197	0.92[EUR][1000 genomes]
rs9713182	0.92[EUR][1000 genomes]
rs9713450	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9713459	0.92[EUR][1000 genomes]
rs9756085	0.92[EUR][1000 genomes]
rs9756114	0.92[EUR][1000 genomes]
rs9757252	0.83[ASN][1000 genomes]
rs9809980	0.83[EUR][1000 genomes]
rs9828863	0.83[EUR][1000 genomes]
rs9831416	0.91[EUR][1000 genomes]
rs9831548	0.92[EUR][1000 genomes]
rs9833690	0.83[EUR][1000 genomes]
rs9842925	0.92[EUR][1000 genomes]
rs9845020	0.83[EUR][1000 genomes]
rs9847167	0.83[EUR][1000 genomes]
rs9864034	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9868090	0.92[EUR][1000 genomes]
rs9868316	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9869007	0.91[EUR][1000 genomes]
rs9869433	0.91[EUR][1000 genomes]
rs9869786	0.80[EUR][1000 genomes]
rs9881446	0.80[EUR][1000 genomes]
rs9882146	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877116	chr3:86518318-86964922	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv877117	chr3:86665408-86927574	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv877118	chr3:86722823-86927574	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv877119	chr3:86722823-86952516	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv877120	chr3:86722823-86961118	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv877121	chr3:86732817-86916882	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv877122	chr3:86732817-86927574	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv877123	chr3:86732817-86952516	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv877125	chr3:86794501-86916882	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv877126	chr3:86794501-86927574	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	nsv519148	chr3:86831077-86995124	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv877127	chr3:86832039-86952516	Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv877128	chr3:86845934-86952516	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
14	nsv877129	chr3:86845934-86964922	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
15	nsv877130	chr3:86875458-86952516	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	n/a	n/a	inside rSNPs	diseases
16	nsv877131	chr3:86875458-86961118	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases

Variant related diseases (count:2)

Disease	PMID	Source
Menarche (age at onset)	25231870	GWAS catalog
Menarche (age at onset)	21102462	GWAS catalog

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:86916200-86917400	Enhancers	HSMMtube	muscle
2	chr3:86916200-86917800	Enhancers	HSMM	muscle
3	chr3:86916800-86917000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr3:86916800-86917200	Enhancers	Fetal Lung	lung
5	chr3:86916800-86917200	Enhancers	Fetal Muscle Leg	muscle
6	chr3:86916800-86917400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr3:86916800-86917600	Enhancers	Muscle Satellite Cultured Cells	--
8	chr3:86916800-86917600	Enhancers	NHDF-Ad	bronchial
9	chr3:86916800-86917800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr3:86916800-86918000	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links