Variant report

Variant	rs4387400
Chromosome Location	chr12:20921775-20921776
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10444412	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10841609	0.81[AMR][1000 genomes]
rs10841610	0.81[AMR][1000 genomes]
rs10841611	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10841612	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10841613	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10841615	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10841616	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10841627	0.86[ASN][1000 genomes]
rs11045439	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11045440	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11045441	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11045446	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11045447	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11045448	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11045452	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11045453	0.82[AMR][1000 genomes]
rs11045459	0.83[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs11045460	0.83[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs11045501	0.82[ASN][1000 genomes]
rs11494694	0.81[ASN][1000 genomes]
rs11519052	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11519054	0.81[ASN][1000 genomes]
rs12423310	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12423980	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12425904	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12810927	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12818167	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12818525	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12819311	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12821686	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1829009	0.81[ASN][1000 genomes]
rs35962288	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4293173	0.81[AMR][1000 genomes]
rs4340099	0.85[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs4360745	0.88[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs4411320	0.88[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs4762670	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4762773	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4762774	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4762777	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4762778	0.85[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs6487138	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6487139	0.80[AFR][1000 genomes]
rs7967660	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7980844	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs953001	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs953002	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs957164	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs972506	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs972507	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs974039	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs974040	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs974041	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9795878	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043890	chr12:20659151-21309993	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv541410	chr12:20659151-21309993	Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv1054997	chr12:20682009-21292602	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv1039951	chr12:20880417-20941238	Weak transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv17347	chr12:20892854-21029179	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv1051454	chr12:20893994-20999635	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv1040033	chr12:20914439-21078855	Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:20892800-20922200	Weak transcription	Aorta	Aorta
2	chr12:20917000-20922200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr12:20917400-20921800	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr12:20919200-20922200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr12:20921400-20922400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr12:20921600-20922400	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links