Variant report

Variant	rs9855054
Chromosome Location	chr3:85123212-85123213
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10433523	0.85[EUR][1000 genomes]
rs11127873	0.86[EUR][1000 genomes]
rs11127877	0.82[EUR][1000 genomes]
rs13072305	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1994315	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2062431	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2200461	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2200464	0.82[EUR][1000 genomes]
rs2220243	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2326126	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2326128	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4410457	0.86[EUR][1000 genomes]
rs4499618	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4856559	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4856560	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6549009	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6549011	0.85[EUR][1000 genomes]
rs6549012	0.86[EUR][1000 genomes]
rs6765011	0.86[EUR][1000 genomes]
rs6768559	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6790864	0.86[EUR][1000 genomes]
rs6796393	0.86[EUR][1000 genomes]
rs6798922	0.81[EUR][1000 genomes]
rs7636138	0.86[EUR][1000 genomes]
rs7645952	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7647649	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs765461	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9814390	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9814835	0.86[EUR][1000 genomes]
rs9820587	0.86[EUR][1000 genomes]
rs9869902	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002058	chr3:84757044-85389876	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv3419993	chr3:85030343-85663403	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv492289	chr3:85066623-85319147	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2753915	chr3:85071410-85624810	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv877093	chr3:85101501-85194054	Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv590897	chr3:85122624-85187085	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85106200-85127400	Weak transcription	Brain Hippocampus Middle	brain
2	chr3:85116600-85130400	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr3:85117000-85123600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr3:85118200-85130400	Weak transcription	Brain Substantia Nigra	brain
5	chr3:85122400-85130800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr3:85123200-85123400	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr3:85123200-85123400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
8	chr3:85123200-85123600	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr3:85123200-85125600	Enhancers	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links