Variant report

Variant	rs1532804
Chromosome Location	chr9:73903802-73903803
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10868991	0.92[EUR][1000 genomes]
rs10868997	0.83[EUR][1000 genomes]
rs11142711	0.90[EUR][1000 genomes]
rs11142717	0.90[EUR][1000 genomes]
rs11142736	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11142750	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11142753	0.84[EUR][1000 genomes]
rs11142763	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11142773	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11142774	0.81[EUR][1000 genomes]
rs11142777	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11142778	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11142779	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11142780	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11142781	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12378604	0.83[EUR][1000 genomes]
rs12379392	0.83[EUR][1000 genomes]
rs12380581	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1504388	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1504389	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1504390	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1504391	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1504392	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1504404	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1532801	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1532802	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1532803	0.86[EUR][1000 genomes]
rs17056425	0.89[EUR][1000 genomes]
rs17056483	0.90[EUR][1000 genomes]
rs17616798	0.92[EUR][1000 genomes]
rs2174308	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2309916	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2309917	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2309918	0.81[AFR][1000 genomes]
rs2871376	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4079469	0.92[EUR][1000 genomes]
rs4370599	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4370600	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7021834	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7027219	0.83[EUR][1000 genomes]
rs7039341	0.89[EUR][1000 genomes]
rs7040929	0.83[EUR][1000 genomes]
rs7043726	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73467746	0.90[EUR][1000 genomes]
rs73469317	0.92[EUR][1000 genomes]
rs73469327	0.84[EUR][1000 genomes]
rs73647995	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs763359	0.91[EUR][1000 genomes]
rs7848661	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7854181	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7854330	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7870153	0.90[EUR][1000 genomes]
rs9785216	0.92[EUR][1000 genomes]
rs9785312	0.84[EUR][1000 genomes]
rs985654	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035505	chr9:73709852-73934353	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv893442	chr9:73778502-74115344	Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv893443	chr9:73859086-74008905	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv916062	chr9:73861614-74246247	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv614605	chr9:73887092-73915883	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv471311	chr9:73902148-73916953	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1532804	TRPM3	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:73901600-73906800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr9:73903400-73904000	Enhancers	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links