Variant report

Variant	rs10040665
Chromosome Location	chr5:108427354-108427355
allele	G/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: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10035284	0.83[ASN][1000 genomes]
rs10036203	0.84[CEU][hapmap];0.85[JPT][hapmap];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10051034	0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs10055161	0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs10063768	0.97[ASN][1000 genomes]
rs10066375	0.86[ASN][1000 genomes]
rs10067445	0.86[ASN][1000 genomes]
rs10069467	0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs10074150	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs10074425	0.86[ASN][1000 genomes]
rs10076453	0.82[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10080132	0.85[ASN][1000 genomes]
rs10213898	0.86[ASN][1000 genomes]
rs10214383	0.86[ASN][1000 genomes]
rs10214384	0.86[ASN][1000 genomes]
rs1036214	0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs10477438	0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs10477439	0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs10477951	0.86[ASN][1000 genomes]
rs10477955	0.84[ASN][1000 genomes]
rs11746231	0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs11749629	0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs11750370	0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs11952637	0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs11957989	0.86[ASN][1000 genomes]
rs11958509	0.82[JPT][hapmap]
rs13362578	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17161607	0.92[CEU][hapmap]
rs17161612	0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs17407717	0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs17450490	0.85[ASN][1000 genomes]
rs2043287	0.88[JPT][hapmap]
rs2416195	0.88[JPT][hapmap]
rs28759518	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3797843	0.99[ASN][1000 genomes]
rs3797845	0.99[ASN][1000 genomes]
rs3814065	0.85[ASN][1000 genomes]
rs4130644	0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs4957568	0.85[ASN][1000 genomes]
rs4957569	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs4957797	0.81[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55699307	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs58724822	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6861626	0.84[ASN][1000 genomes]
rs6869357	0.86[ASN][1000 genomes]
rs6873546	0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs6882003	0.86[ASN][1000 genomes]
rs6882531	0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs6883750	0.86[ASN][1000 genomes]
rs6896724	0.82[ASN][1000 genomes]
rs72796593	0.86[ASN][1000 genomes]
rs72796595	0.86[ASN][1000 genomes]
rs72796596	0.86[ASN][1000 genomes]
rs72798574	0.82[ASN][1000 genomes]
rs72798576	0.81[ASN][1000 genomes]
rs7706103	0.83[JPT][hapmap]
rs7710527	0.83[CHB][hapmap]
rs7731193	0.87[JPT][hapmap];0.97[ASN][1000 genomes]
rs7736773	0.82[ASN][1000 genomes]
rs892009	0.82[JPT][hapmap]
rs9326757	0.82[JPT][hapmap]
rs9326763	0.83[ASN][1000 genomes]
rs9326764	0.84[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	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:17 , 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	chr5:108417200-108428400	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr5:108422200-108434400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr5:108422800-108444800	Weak transcription	Left Ventricle	heart
6	chr5:108423800-108428000	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr5:108424000-108431400	Weak transcription	NHEK	skin
8	chr5:108425000-108427600	Weak transcription	Primary T cells from cord blood	blood
9	chr5:108425200-108427400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
10	chr5:108426000-108429000	Weak transcription	Fetal Intestine Small	intestine
11	chr5:108426000-108441400	Weak transcription	Aorta	Aorta
12	chr5:108426600-108427400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr5:108426600-108427600	Strong transcription	Fetal Stomach	stomach
14	chr5:108426800-108427600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr5:108427000-108427400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr5:108427200-108427400	ZNF genes & repeats	Esophagus	oesophagus
17	chr5:108427200-108427400	Genic enhancers	Pancreas	Pancrea

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