Variant report

Variant	rs72953162
Chromosome Location	chr3:51248710-51248711
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs12485331	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12485754	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12487496	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12489219	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12490026	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12491836	1.00[EUR][1000 genomes]
rs12492615	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12492690	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12493034	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12493323	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12493359	0.89[EUR][1000 genomes]
rs12495561	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12496830	0.89[EUR][1000 genomes]
rs1809388	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2086395	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2127654	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2170177	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2355946	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3762711	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4130473	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4323036	0.89[EUR][1000 genomes]
rs4346580	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4927961	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4974100	0.89[EUR][1000 genomes]
rs4974112	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs56052360	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs57406588	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58720544	0.89[EUR][1000 genomes]
rs58911602	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs59129045	0.83[AMR][1000 genomes]
rs59682667	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59834534	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59957657	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60128296	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs60461297	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60567238	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs60740654	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs60882641	0.89[EUR][1000 genomes]
rs61660900	0.87[AMR][1000 genomes]
rs6792254	0.89[EUR][1000 genomes]
rs72936442	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72936462	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72941919	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs72943130	0.89[EUR][1000 genomes]
rs72943137	0.89[EUR][1000 genomes]
rs72943166	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72948197	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72948200	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72953143	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72953175	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7372342	0.89[EUR][1000 genomes]
rs9878592	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005858	chr3:51090373-51444027	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv536569	chr3:51090373-51444027	Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51227200-51250600	Weak transcription	Brain Hippocampus Middle	brain
2	chr3:51228200-51252400	Weak transcription	Brain Cingulate Gyrus	brain
3	chr3:51234600-51262800	Weak transcription	Brain Angular Gyrus	brain
4	chr3:51235400-51252400	Weak transcription	Brain Anterior Caudate	brain
5	chr3:51235800-51285000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:51236600-51251800	Weak transcription	Fetal Brain Female	brain
7	chr3:51236600-51265000	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr3:51245800-51252000	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr3:51246600-51251600	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr3:51247400-51251600	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr3:51248000-51251600	Weak transcription	Brain Substantia Nigra	brain
12	chr3:51248000-51259200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr3:51248000-51282600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr3:51248200-51259200	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr3:51248200-51265600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:51248600-51251800	Weak transcription	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links