Variant report

Variant	rs2966824
Chromosome Location	chr5:107620630-107620631
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10477892	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10477895	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13153782	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13161833	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13162374	0.88[ASN][1000 genomes]
rs13162979	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13173916	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13190222	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1544741	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs158170	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs158604	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs158605	0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs158606	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs158607	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs158608	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs158609	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1588496	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17161232	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17385448	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17452232	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1828457	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1849012	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1862196	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2052464	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2416189	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs286769	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs286771	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2900122	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2941693	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2941694	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2941697	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2966830	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2966832	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2966834	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34261817	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34388	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34409	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34413	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34414	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34420	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34421	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34422	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34423	0.84[ASN][1000 genomes]
rs34527417	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34747859	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34771507	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34854088	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35903369	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4438862	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4957755	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62359544	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6594299	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6594300	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6896653	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71592749	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7711964	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7724056	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs988436	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs988437	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534281	chr5:107357579-107674981	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv882683	chr5:107476501-107769095	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	nsv882684	chr5:107521677-107695558	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv830442	chr5:107539150-107697020	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv882685	chr5:107564746-107695558	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv882686	chr5:107564746-107769095	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	nsv4950	chr5:107587778-107637348	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv882687	chr5:107595383-107695558	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv882688	chr5:107595383-107715746	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
10	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
11	esv2755544	chr5:107614101-107748101	Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
12	nsv499245	chr5:107619303-107629595	Weak transcription Enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107604800-107644400	Weak transcription	Fetal Intestine Small	intestine
2	chr5:107612400-107624600	Weak transcription	Aorta	Aorta
3	chr5:107614600-107627000	Weak transcription	Fetal Heart	heart
4	chr5:107615000-107705600	Weak transcription	Left Ventricle	heart
5	chr5:107615200-107660400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr5:107616800-107631200	Weak transcription	Stomach Mucosa	stomach
7	chr5:107618200-107628400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr5:107619600-107631200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr5:107619800-107620800	ZNF genes & repeats	Primary B cells from cord blood	blood
10	chr5:107620400-107640800	Weak transcription	Primary T cells from cord blood	blood
11	chr5:107620600-107678600	Weak transcription	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links