Variant report

Variant	rs17365142
Chromosome Location	chr3:59874097-59874098
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11924342	1.00[EUR][1000 genomes]
rs11924368	1.00[EUR][1000 genomes]
rs1352021	0.81[AMR][1000 genomes]
rs17061328	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17061335	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17061336	0.89[AFR][1000 genomes]
rs17061337	0.89[AFR][1000 genomes]
rs17061338	0.89[AFR][1000 genomes]
rs17061347	0.89[AFR][1000 genomes]
rs17061352	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17061366	1.00[EUR][1000 genomes]
rs17061380	1.00[EUR][1000 genomes]
rs17299290	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17365190	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4368451	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55720112	1.00[ASN][1000 genomes]
rs56010440	1.00[ASN][1000 genomes]
rs56145583	1.00[ASN][1000 genomes]
rs56192120	1.00[ASN][1000 genomes]
rs56233685	1.00[ASN][1000 genomes]
rs56242402	1.00[ASN][1000 genomes]
rs56414037	1.00[EUR][1000 genomes]
rs620113	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73100649	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73100651	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73100660	1.00[ASN][1000 genomes]
rs73100663	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73100666	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73100668	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73100670	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73100672	1.00[ASN][1000 genomes]
rs73100675	1.00[ASN][1000 genomes]
rs73100680	1.00[EUR][1000 genomes]
rs73100688	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73100697	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73100701	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014601	chr3:59666609-59888166	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
2	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv460564	chr3:59821071-59927727	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv590384	chr3:59821071-59927727	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv460565	chr3:59842644-59877988	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv470616	chr3:59842644-59877988	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv590385	chr3:59842644-59877988	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv590386	chr3:59846067-59912377	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59868800-59882600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:59871400-59879200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
3	chr3:59872600-59880600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr3:59872600-59880600	Weak transcription	Fetal Thymus	thymus
5	chr3:59872600-59884200	Weak transcription	Dnd41	blood
6	chr3:59873200-59904200	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr3:59873600-59874200	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr3:59873800-59876000	Weak transcription	Primary T cells from cord blood	blood
9	chr3:59874000-59874800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr3:59874000-59876000	Weak transcription	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links