Variant report

Variant	rs7651932
Chromosome Location	chr3:56084240-56084241
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 106 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs10461036	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10510779	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10510780	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10510781	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11428238	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13315826	0.91[EUR][1000 genomes]
rs13326476	0.91[EUR][1000 genomes]
rs13326628	0.91[EUR][1000 genomes]
rs17056469	0.89[EUR][1000 genomes]
rs17056472	0.88[EUR][1000 genomes]
rs17235263	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17235291	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17235305	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17235368	0.91[EUR][1000 genomes]
rs17235375	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17235382	0.91[EUR][1000 genomes]
rs17235389	0.91[EUR][1000 genomes]
rs17235396	0.91[EUR][1000 genomes]
rs17825159	0.90[EUR][1000 genomes]
rs17825183	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17825189	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17825201	0.91[EUR][1000 genomes]
rs17825207	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17825213	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17825219	0.91[EUR][1000 genomes]
rs17825278	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1982766	0.90[EUR][1000 genomes]
rs28463735	0.90[EUR][1000 genomes]
rs28464790	0.91[EUR][1000 genomes]
rs35563958	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56101867	0.90[EUR][1000 genomes]
rs58375176	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61401343	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6800841	0.88[EUR][1000 genomes]
rs6805331	0.84[EUR][1000 genomes]
rs6807938	0.88[EUR][1000 genomes]
rs73089182	0.83[EUR][1000 genomes]
rs73089299	0.91[EUR][1000 genomes]
rs73091008	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091011	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73091012	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73091052	0.90[EUR][1000 genomes]
rs73091061	0.90[EUR][1000 genomes]
rs73091207	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73091213	0.90[EUR][1000 genomes]
rs73091231	0.91[EUR][1000 genomes]
rs73091236	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73091241	0.92[EUR][1000 genomes]
rs73091242	0.88[EUR][1000 genomes]
rs7625220	0.87[EUR][1000 genomes]
rs7625230	0.86[EUR][1000 genomes]
rs7625422	0.85[EUR][1000 genomes]
rs7629639	0.92[EUR][1000 genomes]
rs7629769	0.88[EUR][1000 genomes]
rs7632887	0.87[EUR][1000 genomes]
rs7632901	0.87[EUR][1000 genomes]
rs923127	0.90[EUR][1000 genomes]
rs923128	0.90[EUR][1000 genomes]
rs9311594	0.90[EUR][1000 genomes]
rs9311595	0.91[EUR][1000 genomes]
rs9311596	0.89[EUR][1000 genomes]
rs9810107	0.91[EUR][1000 genomes]
rs9810354	0.89[EUR][1000 genomes]
rs9811060	0.91[EUR][1000 genomes]
rs9811789	0.91[EUR][1000 genomes]
rs9811790	0.91[EUR][1000 genomes]
rs9814900	0.91[EUR][1000 genomes]
rs9815611	0.91[EUR][1000 genomes]
rs9817131	0.90[EUR][1000 genomes]
rs9817492	0.91[EUR][1000 genomes]
rs9817542	0.91[EUR][1000 genomes]
rs9819890	0.88[EUR][1000 genomes]
rs9820348	0.83[EUR][1000 genomes]
rs9820493	0.88[EUR][1000 genomes]
rs9827514	0.91[EUR][1000 genomes]
rs9828337	0.91[EUR][1000 genomes]
rs9830503	0.88[EUR][1000 genomes]
rs9831925	0.89[EUR][1000 genomes]
rs9837290	0.91[EUR][1000 genomes]
rs9838245	0.90[EUR][1000 genomes]
rs9842617	0.88[EUR][1000 genomes]
rs9844291	0.91[EUR][1000 genomes]
rs9854960	0.90[EUR][1000 genomes]
rs9855148	0.91[EUR][1000 genomes]
rs9855836	0.91[EUR][1000 genomes]
rs9857687	0.88[EUR][1000 genomes]
rs9860909	0.91[EUR][1000 genomes]
rs9861486	0.91[EUR][1000 genomes]
rs9862215	0.91[EUR][1000 genomes]
rs9865648	0.90[EUR][1000 genomes]
rs9865958	0.90[EUR][1000 genomes]
rs9866234	0.90[EUR][1000 genomes]
rs9866951	0.91[EUR][1000 genomes]
rs9869654	0.91[EUR][1000 genomes]
rs9870248	0.89[EUR][1000 genomes]
rs9870989	0.91[EUR][1000 genomes]
rs9871223	0.91[EUR][1000 genomes]
rs9874507	0.90[EUR][1000 genomes]
rs9874662	0.88[EUR][1000 genomes]
rs9880824	0.91[EUR][1000 genomes]
rs9881126	0.91[EUR][1000 genomes]
rs9881968	0.90[EUR][1000 genomes]
rs9882373	0.91[EUR][1000 genomes]
rs9883636	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1009709	chr3:56000827-56294945	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7651932	ARHGEF3	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56071000-56084600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:56076400-56086400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:56076600-56086200	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr3:56078000-56086200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr3:56079600-56086200	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr3:56081400-56088600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr3:56082400-56086600	Weak transcription	Fetal Kidney	kidney
8	chr3:56082600-56085200	Enhancers	Ovary	ovary
9	chr3:56083000-56085400	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr3:56083200-56086200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr3:56083200-56086200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr3:56083400-56086200	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr3:56084000-56084800	Enhancers	Rectal Mucosa Donor 31	rectum

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