Variant report

Variant	rs55699307
Chromosome Location	chr5:108428603-108428604
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	chr5:108421631..108425653-chr5:108427345..108431594,4	K562	blood:

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10035284	0.88[ASN][1000 genomes]
rs10036203	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10040665	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10051034	0.87[ASN][1000 genomes]
rs10055161	0.90[ASN][1000 genomes]
rs10056059	0.82[AMR][1000 genomes]
rs10063768	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10066375	0.91[ASN][1000 genomes]
rs10067445	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10069467	0.87[ASN][1000 genomes]
rs10074150	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10074425	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10076453	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10080132	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10213898	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10214383	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10214384	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1036214	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10477438	0.89[ASN][1000 genomes]
rs10477439	0.86[ASN][1000 genomes]
rs10477951	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10477955	0.89[ASN][1000 genomes]
rs10900651	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11746231	0.87[ASN][1000 genomes]
rs11749629	0.87[ASN][1000 genomes]
rs11750370	0.87[ASN][1000 genomes]
rs11952637	0.90[ASN][1000 genomes]
rs11957989	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12332736	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17161607	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17161612	0.90[ASN][1000 genomes]
rs17407717	0.90[ASN][1000 genomes]
rs17450338	0.87[AMR][1000 genomes]
rs17450490	0.90[ASN][1000 genomes]
rs28433735	0.83[AMR][1000 genomes]
rs28759518	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3797838	0.84[EUR][1000 genomes]
rs3797843	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3797845	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3814065	0.90[ASN][1000 genomes]
rs4130644	0.87[ASN][1000 genomes]
rs4957568	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4957569	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4957797	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67436896	0.81[AMR][1000 genomes]
rs6861626	0.89[ASN][1000 genomes]
rs6869357	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6873546	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6882003	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6882531	0.87[ASN][1000 genomes]
rs6883750	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6894117	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6896724	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72796568	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs72796571	0.87[AMR][1000 genomes]
rs72796593	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72796595	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72796596	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72798574	0.87[ASN][1000 genomes]
rs72798576	0.86[ASN][1000 genomes]
rs7709466	0.84[AMR][1000 genomes]
rs7709482	0.84[AMR][1000 genomes]
rs7724901	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7731193	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7736773	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9326763	0.88[ASN][1000 genomes]
rs9326764	0.89[ASN][1000 genomes]
rs972278	0.84[AMR][1000 genomes];0.83[EUR][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	nsv830443	chr5:108326491-108496723	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv882692	chr5:108391660-108474166	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv882693	chr5:108391660-108502493	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv882694	chr5:108391660-108524416	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv969193	chr5:108410957-108429737	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:108410400-108441200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr5:108416400-108441200	Weak transcription	HSMM	muscle
3	chr5:108422200-108434400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr5:108422800-108444800	Weak transcription	Left Ventricle	heart
5	chr5:108424000-108431400	Weak transcription	NHEK	skin
6	chr5:108426000-108429000	Weak transcription	Fetal Intestine Small	intestine
7	chr5:108426000-108441400	Weak transcription	Aorta	Aorta
8	chr5:108427400-108441200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr5:108427400-108441400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr5:108427600-108428800	Weak transcription	Fetal Stomach	stomach
11	chr5:108427600-108430400	Weak transcription	Pancreas	Pancrea
12	chr5:108427600-108430800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links