Variant report

Variant	rs55962659
Chromosome Location	chr2:178743162-178743163
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:178727946..178730460-chr2:178742124..178744649,2	K562	blood:
2	chr2:178736620..178738806-chr2:178741458..178743918,2	K562	blood:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11674299	0.81[ASN][1000 genomes]
rs11677176	0.85[EUR][1000 genomes]
rs11687117	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11695452	0.85[EUR][1000 genomes]
rs13413635	0.81[ASN][1000 genomes]
rs1438053	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17329062	0.81[AFR][1000 genomes]
rs1852501	0.85[EUR][1000 genomes]
rs1852502	0.85[EUR][1000 genomes]
rs1866213	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1880916	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2573087	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2695107	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2695728	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2695739	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3910519	0.88[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4324348	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55889420	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55943462	0.98[AFR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62183411	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62183412	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62183443	0.85[EUR][1000 genomes]
rs62183445	0.85[EUR][1000 genomes]
rs62184549	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6705472	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6711886	0.82[EUR][1000 genomes]
rs6716496	0.82[ASN][1000 genomes]
rs6723691	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6738831	0.85[EUR][1000 genomes]
rs6758473	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6759109	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7558301	0.81[ASN][1000 genomes]
rs7588973	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999086	chr2:178262348-178773585	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv536055	chr2:178262348-178773585	Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv533377	chr2:178718801-178963463	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1007579	chr2:178729330-178890946	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:178734400-178744800	Weak transcription	Psoas Muscle	Psoas
2	chr2:178739400-178744800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr2:178739600-178744800	Weak transcription	HepG2	liver
4	chr2:178740000-178744800	Weak transcription	Fetal Intestine Small	intestine
5	chr2:178741000-178759200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr2:178741600-178748000	Enhancers	Liver	Liver
7	chr2:178742600-178743800	Weak transcription	Fetal Heart	heart
8	chr2:178742600-178744800	Weak transcription	Fetal Intestine Large	intestine
9	chr2:178743000-178743400	Enhancers	Adipose Nuclei	Adipose
10	chr2:178743000-178743400	Enhancers	Gastric	stomach
11	chr2:178743000-178743400	Enhancers	Skeletal Muscle Female	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links