Variant report

Variant	rs2165503
Chromosome Location	chr4:102303145-102303146
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10006779	0.95[ASN][1000 genomes]
rs10009118	0.95[ASN][1000 genomes]
rs10014486	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10029239	0.95[ASN][1000 genomes]
rs11939694	0.95[ASN][1000 genomes]
rs11945941	0.85[ASN][1000 genomes]
rs1837771	1.00[ASN][1000 genomes]
rs2119597	0.90[ASN][1000 genomes]
rs28360831	1.00[ASN][1000 genomes]
rs28536504	1.00[ASN][1000 genomes]
rs28555671	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28635484	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28660297	0.85[ASN][1000 genomes]
rs2866377	0.95[ASN][1000 genomes]
rs2866378	0.95[ASN][1000 genomes]
rs2866379	0.95[ASN][1000 genomes]
rs28694583	1.00[ASN][1000 genomes]
rs28700161	0.95[ASN][1000 genomes]
rs28704863	1.00[ASN][1000 genomes]
rs28720081	0.95[ASN][1000 genomes]
rs28827307	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28888113	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2903268	0.95[ASN][1000 genomes]
rs3789755	0.85[ASN][1000 genomes]
rs4312762	0.85[ASN][1000 genomes]
rs4394003	0.95[ASN][1000 genomes]
rs55859752	1.00[ASN][1000 genomes]
rs57899609	0.85[ASN][1000 genomes]
rs58251277	0.95[ASN][1000 genomes]
rs58296360	1.00[ASN][1000 genomes]
rs58947457	0.85[ASN][1000 genomes]
rs6817805	0.85[ASN][1000 genomes]
rs6831824	0.85[ASN][1000 genomes]
rs6832965	0.95[ASN][1000 genomes]
rs6856511	0.95[ASN][1000 genomes]
rs72918881	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72923706	0.85[ASN][1000 genomes]
rs72930867	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73833769	0.85[ASN][1000 genomes]
rs73833770	0.85[ASN][1000 genomes]
rs7697450	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9884169	0.95[ASN][1000 genomes]
rs9884170	0.95[ASN][1000 genomes]
rs9884171	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9884173	0.95[ASN][1000 genomes]
rs9884606	0.95[ASN][1000 genomes]
rs9995557	0.95[ASN][1000 genomes]
rs9996429	0.95[ASN][1000 genomes]
rs9999708	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931418	chr4:101500167-102443207	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv999741	chr4:102009017-102454115	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	nsv537199	chr4:102009017-102454115	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1004766	chr4:102009017-102713765	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
5	nsv537200	chr4:102009017-102713765	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1011351	chr4:102056024-102450302	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
7	nsv879676	chr4:102202285-102340930	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2165503	ASCL1	trans	lymphoblastoid	seeQTL
rs2165503	SIRPG	trans	lymphoblastoid	seeQTL
rs2165503	PHF16	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:102289400-102314600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links