Variant report

Variant	rs11743265
Chromosome Location	chr5:95744744-95744745
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10866767	0.81[CEU][hapmap]
rs11135457	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11741888	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11747615	0.80[EUR][1000 genomes]
rs11948972	1.00[ASW][hapmap];1.00[YRI][hapmap]
rs13181198	0.80[EUR][1000 genomes]
rs155971	0.83[CEU][hapmap]
rs155994	0.83[CEU][hapmap]
rs155995	0.81[CEU][hapmap]
rs156019	0.83[CEU][hapmap]
rs156021	0.82[CEU][hapmap]
rs1995186	0.86[EUR][1000 genomes]
rs271921	0.91[CEU][hapmap]
rs271923	0.91[CEU][hapmap]
rs271927	0.87[CEU][hapmap]
rs3792744	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3811942	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[GIH][hapmap];0.86[MEX][hapmap];0.94[TSI][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs436321	0.83[CEU][hapmap]
rs4529218	0.81[CEU][hapmap]
rs456709	0.83[CEU][hapmap]
rs4637573	0.81[CEU][hapmap]
rs4869284	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030444	chr5:95353620-95995619	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
2	nsv537810	chr5:95353620-95995619	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1024964	chr5:95742124-96065492	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv537811	chr5:95742124-96065492	Transcr. at gene 5' and 3' Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11743265	FAM172A	cis	parietal	SCAN

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:95720800-95745400	Weak transcription	Brain Angular Gyrus	brain
2	chr5:95733000-95745800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr5:95743200-95744800	Enhancers	A549	lung
4	chr5:95743400-95744800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr5:95743400-95745200	Enhancers	Muscle Satellite Cultured Cells	--
6	chr5:95743400-95745200	Flanking Active TSS	Hela-S3	cervix
7	chr5:95743600-95745000	Enhancers	NH-A	brain
8	chr5:95743800-95744800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr5:95743800-95744800	Enhancers	HMEC	breast
10	chr5:95743800-95745200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr5:95744000-95746600	Enhancers	Osteobl	bone
12	chr5:95744200-95745000	Enhancers	NHEK	skin
13	chr5:95744200-95745200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr5:95744200-95745800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr5:95744200-95746600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr5:95744200-95746600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr5:95744200-95761400	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr5:95744400-95745200	Weak transcription	Brain Anterior Caudate	brain
19	chr5:95744400-95745400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr5:95744400-95745400	Enhancers	HUVEC	blood vessel
21	chr5:95744400-95746200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr5:95744600-95745400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr5:95744600-95747400	Weak transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links