Variant report

Variant	rs406032
Chromosome Location	chr15:93201088-93201089
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12443091	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12908852	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1496712	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1496726	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16974307	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2254142	0.87[EUR][1000 genomes]
rs2453901	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs285754	0.85[EUR][1000 genomes]
rs285755	0.86[EUR][1000 genomes]
rs285757	0.86[EUR][1000 genomes]
rs285758	0.86[EUR][1000 genomes]
rs285772	0.89[EUR][1000 genomes]
rs373481	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs413450	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs434826	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs503112	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6496969	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7178546	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs893379	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[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	nsv1037972	chr15:92804908-93270761	Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
2	nsv904499	chr15:92914795-93472582	Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	163 gene(s)	inside rSNPs	diseases
3	nsv948738	chr15:93070742-93728147	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
4	nsv1049490	chr15:93134405-93591660	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	151 gene(s)	inside rSNPs	diseases
5	nsv1040501	chr15:93177153-93286393	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs406032	LOC400451	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:93199600-93202400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr15:93199600-93210000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:93200000-93207600	Weak transcription	Stomach Mucosa	stomach
4	chr15:93200200-93202400	Weak transcription	GM12878-XiMat	blood
5	chr15:93200200-93207600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr15:93200200-93207600	Weak transcription	Pancreas	Pancrea
7	chr15:93200400-93201200	Enhancers	Placenta	Placenta
8	chr15:93200600-93207400	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr15:93201000-93201200	Enhancers	Ovary	ovary
10	chr15:93201000-93202200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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