Variant report

Variant	rs6545665
Chromosome Location	chr2:58023218-58023219
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10204616	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1040224	0.83[EUR][1000 genomes]
rs1040225	0.84[EUR][1000 genomes]
rs10496078	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10496079	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10865304	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1106302	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs11898858	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12713358	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12990792	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12997222	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1356544	0.84[EUR][1000 genomes]
rs1356545	0.84[EUR][1000 genomes]
rs1402398	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1568450	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1589407	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2090793	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2139054	0.80[EUR][1000 genomes]
rs2204019	0.84[ASN][1000 genomes]
rs2312141	0.81[EUR][1000 genomes]
rs2465804	0.84[EUR][1000 genomes]
rs2678881	0.84[EUR][1000 genomes]
rs2678901	0.83[EUR][1000 genomes]
rs2678903	0.84[EUR][1000 genomes]
rs2678904	0.82[EUR][1000 genomes]
rs2678905	0.84[EUR][1000 genomes]
rs2678906	0.84[EUR][1000 genomes]
rs2678908	0.85[EUR][1000 genomes]
rs2678915	0.84[EUR][1000 genomes]
rs2683614	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2683616	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2683619	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2683620	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2683622	0.83[ASN][1000 genomes]
rs2683625	0.87[ASN][1000 genomes]
rs2683628	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2683629	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2683634	0.84[EUR][1000 genomes]
rs2716998	0.82[ASN][1000 genomes]
rs2716999	0.83[ASN][1000 genomes]
rs2717001	0.82[EUR][1000 genomes]
rs2717002	0.84[EUR][1000 genomes]
rs2717004	0.84[EUR][1000 genomes]
rs2717007	0.84[EUR][1000 genomes]
rs2717015	0.81[EUR][1000 genomes]
rs2717018	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2717048	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2717056	0.84[EUR][1000 genomes]
rs2717063	0.81[EUR][1000 genomes]
rs2717068	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2717075	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2947350	0.82[ASN][1000 genomes]
rs2947351	0.83[ASN][1000 genomes]
rs2953437	0.83[ASN][1000 genomes]
rs2953438	0.84[ASN][1000 genomes]
rs2953439	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2953441	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2953443	0.87[ASN][1000 genomes]
rs3886275	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4296411	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4672223	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6545663	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6545664	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66490669	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6730037	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6737913	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6756221	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6761347	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7561842	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7588492	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7598169	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007118	chr2:57562051-58147588	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv874193	chr2:57758608-58066673	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1006688	chr2:57822953-58030203	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv874196	chr2:57946148-58220320	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv874197	chr2:57978858-58068741	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv834148	chr2:57979661-58119213	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv874198	chr2:57987593-58068741	Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv458030	chr2:58012833-58062220	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv582095	chr2:58012833-58062220	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv1010981	chr2:58013389-58205699	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:58022000-58026600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:58022400-58023800	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr2:58022400-58023800	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr2:58022400-58023800	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr2:58022600-58023400	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr2:58022600-58023600	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr2:58022600-58024200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr2:58022600-58024200	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr2:58022600-58024600	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr2:58023000-58023400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr2:58023000-58025800	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr2:58023000-58025800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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