Variant report

Variant	rs1668506
Chromosome Location	chr5:52025395-52025396
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs12332623	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1626287	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1645393	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1645394	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs164611	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs164612	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs244481	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs244491	0.86[ASN][1000 genomes]
rs244493	0.89[ASN][1000 genomes]
rs244495	0.88[ASN][1000 genomes]
rs29976	0.90[ASN][1000 genomes]
rs29977	0.91[ASN][1000 genomes]
rs29980	0.91[ASN][1000 genomes]
rs29982	0.91[ASN][1000 genomes]
rs351933	0.96[ASN][1000 genomes]
rs351937	0.96[ASN][1000 genomes]
rs351940	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs39811	0.91[ASN][1000 genomes]
rs599698	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs651393	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs657796	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs658771	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs664248	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2754787	chr5:51688543-52193243	Enhancers Active TSS Genic enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv462187	chr5:51758804-52333420	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv598163	chr5:51758804-52333420	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
4	nsv471013	chr5:51779197-52339114	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
5	nsv1027410	chr5:52022713-52103360	Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 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	chr5:52022000-52025400	Enhancers	Primary T helper naive cells from peripheral blood	blood
2	chr5:52022000-52026800	Weak transcription	Fetal Intestine Large	intestine
3	chr5:52022400-52026800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr5:52022800-52026600	Enhancers	Dnd41	blood
5	chr5:52022800-52026800	Weak transcription	HepG2	liver
6	chr5:52023600-52026000	Enhancers	Primary T cells from cord blood	blood
7	chr5:52024200-52027800	Weak transcription	Duodenum Mucosa	Duodenum
8	chr5:52024200-52033600	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr5:52024200-52033800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr5:52024400-52026800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr5:52024400-52026800	Weak transcription	Thymus	Thymus
12	chr5:52024600-52027800	Weak transcription	Small Intestine	intestine
13	chr5:52024800-52025400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
14	chr5:52024800-52025400	Enhancers	Colon Smooth Muscle	Colon
15	chr5:52025000-52033000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr5:52025200-52026600	Weak transcription	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links