Variant report

Variant	rs13103488
Chromosome Location	chr4:21462661-21462662
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GPR125-6	chr4:21454062-21463909	ucscGeneNc_uc003gqj_1

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

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs11942476	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13101628	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13102279	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13121386	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13122564	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13122807	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13128830	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13129400	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13129501	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13129942	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13129962	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13143135	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13145021	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13145622	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13149579	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13150965	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1460488	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1460489	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1460490	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17523841	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17524714	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17524784	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17524952	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17525063	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34222306	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34339769	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34836460	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34900760	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35032154	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35733464	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35854475	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35895330	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs66601179	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs66652160	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66739930	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs66773055	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs66993458	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67306339	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs67949357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67990405	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs68049217	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs68116688	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6843022	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6843295	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71607078	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73249592	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73252219	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7441592	0.98[AMR][1000 genomes];0.97[EUR][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	nsv1013365	chr4:20834054-21609078	Bivalent/Poised TSS Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1014062	chr4:21270358-21479027	Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv829879	chr4:21418568-21611002	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv998481	chr4:21421945-21608805	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
5	esv18843	chr4:21448552-21467379	Enhancers Weak transcription Bivalent Enhancer	lncRNA miRNA	n/a	inside rSNPs	n/a
6	esv2760822	chr4:21450944-21467397	Enhancers Weak transcription Bivalent Enhancer	lncRNA miRNA	n/a	inside rSNPs	n/a
7	nsv593800	chr4:21456023-21471568	Enhancers Weak transcription Active TSS	Chromatin interactive region lncRNA miRNA	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:21448400-21465600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links