Variant report

Variant	rs13092881
Chromosome Location	chr3:178669222-178669223
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs13072825	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13094954	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4337680	0.87[ASN][1000 genomes]
rs4501160	0.91[ASN][1000 genomes]
rs4522816	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4525914	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4955802	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56154408	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6443607	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6789706	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7643052	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7651510	0.91[ASN][1000 genomes]
rs9879637	0.91[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	nsv998253	chr3:178622707-179196274	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv536814	chr3:178622707-179196274	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv1010148	chr3:178650949-178691377	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv461026	chr3:178661814-178886609	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv592649	chr3:178661814-178886609	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs13092881	KCNMB3	cis	parietal	SCAN
rs13092881	YEATS2	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:178666000-178677800	Weak transcription	HSMMtube	muscle
2	chr3:178668000-178669400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr3:178668000-178669400	Enhancers	HMEC	breast
4	chr3:178668000-178669400	Enhancers	NHEK	skin
5	chr3:178668800-178669400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:178668800-178671400	Weak transcription	HSMM	muscle
7	chr3:178668800-178683000	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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Input of quick search could be:

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

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