Variant report

Variant	rs16893536
Chromosome Location	chr8:121103751-121103752
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	chr8:121098868..121101736-chr8:121103594..121106320,2	K562	blood:
2	chr8:121100236..121103118-chr8:121103170..121106043,3	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10096137	0.95[YRI][hapmap];0.88[AFR][1000 genomes]
rs10096311	0.88[AFR][1000 genomes]
rs10108447	0.86[AFR][1000 genomes]
rs10505376	0.80[JPT][hapmap]
rs10808506	0.80[JPT][hapmap]
rs10955953	0.86[LWK][hapmap];0.81[YRI][hapmap]
rs11780985	0.80[JPT][hapmap]
rs16893478	0.80[JPT][hapmap]
rs16893570	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17226296	0.82[CHD][hapmap];0.80[JPT][hapmap]
rs2875931	0.82[CHD][hapmap];0.80[JPT][hapmap]
rs4409431	0.88[AFR][1000 genomes]
rs4427214	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4541974	0.88[CHB][hapmap];0.90[JPT][hapmap]
rs56943326	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6469895	0.80[JPT][hapmap]
rs6469898	0.90[LWK][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes]
rs6469899	0.91[LWK][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes]
rs6987481	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7000436	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7001214	0.84[YRI][hapmap]
rs7007998	0.82[CHD][hapmap];0.80[JPT][hapmap]
rs71571652	0.81[AFR][1000 genomes]
rs73317750	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7815878	0.87[AFR][1000 genomes]
rs7816925	0.86[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap]
rs7822662	0.80[JPT][hapmap]
rs7829116	0.80[JPT][hapmap]
rs7834024	0.96[YRI][hapmap]
rs7840217	0.86[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap]
rs7841621	0.80[JPT][hapmap]
rs7843503	0.80[JPT][hapmap]
rs9297614	0.96[YRI][hapmap];0.87[AFR][1000 genomes]
rs960887	0.80[JPT][hapmap]
rs9969405	0.81[YRI][hapmap]
rs9969477	0.91[LWK][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes]
rs9969584	0.91[LWK][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv891418	chr8:120600965-121301474	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	esv3348294	chr8:121000288-121250984	Flanking Active TSS Strong transcription Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1025923	chr8:121093383-121108706	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs16893536	DEPDC6	cis	normal skin	skin_eQTL
rs16893536	RP11-760H22.2	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:121097600-121104400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr8:121100400-121104400	Weak transcription	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links