Variant report

Variant	rs12231408
Chromosome Location	chr12:72373904-72373905
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10879344	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs10879348	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11179003	1.00[JPT][hapmap]
rs11179004	1.00[JPT][hapmap]
rs11179015	0.90[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11179017	0.88[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11179018	0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11179020	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11179022	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11179024	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11179028	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11179031	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11179032	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11179037	1.00[EUR][1000 genomes]
rs11179038	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs11179041	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs11179043	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs11179044	0.90[EUR][1000 genomes]
rs11179045	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs11179047	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs11179048	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs12228247	0.91[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12228278	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs12228879	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12230254	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs12230512	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs12230557	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12231731	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1386488	1.00[JPT][hapmap]
rs1386492	0.82[JPT][hapmap]
rs1386493	1.00[JPT][hapmap]
rs17840794	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1843810	0.82[JPT][hapmap]
rs58016821	0.90[EUR][1000 genomes]
rs61441298	0.90[EUR][1000 genomes]
rs6582072	1.00[JPT][hapmap]
rs7300641	0.82[JPT][hapmap]
rs73342876	0.93[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73342882	0.93[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73342883	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73342886	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73344848	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73344850	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73344873	0.90[EUR][1000 genomes]
rs7978482	0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048478	chr12:72145703-72401712	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv541530	chr12:72145703-72401712	Weak transcription ZNF genes & repeats Active TSS Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv518498	chr12:72307616-72508779	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv1054578	chr12:72307616-72509341	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
5	nsv1036178	chr12:72361408-72378599	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:72367000-72376200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr12:72367000-72376200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr12:72368800-72374200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr12:72373600-72374200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr12:72373600-72374400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr12:72373600-72375200	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr12:72373800-72375000	Enhancers	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links