Variant report

Variant	rs16969097
Chromosome Location	chr15:39778991-39778992
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs16952148	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs16969021	1.00[AMR][1000 genomes]
rs16969023	1.00[AMR][1000 genomes]
rs16969030	1.00[AMR][1000 genomes]
rs16969032	1.00[AMR][1000 genomes]
rs16969052	1.00[AMR][1000 genomes]
rs16969077	1.00[AMR][1000 genomes]
rs16969108	1.00[AMR][1000 genomes]
rs16969113	1.00[AMR][1000 genomes]
rs16969537	1.00[AMR][1000 genomes]
rs4091683	1.00[AMR][1000 genomes]
rs4641712	1.00[AMR][1000 genomes]
rs60614142	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60827388	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74010137	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8030678	1.00[AMR][1000 genomes]
rs9672485	1.00[YRI][hapmap];1.00[AMR][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	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv904094	chr15:39738006-39976057	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39777800-39783000	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr15:39778000-39783000	Enhancers	Fetal Lung	lung
3	chr15:39778200-39780200	Enhancers	Rectal Smooth Muscle	rectum
4	chr15:39778200-39780400	Enhancers	Colon Smooth Muscle	Colon
5	chr15:39778400-39780200	Enhancers	Stomach Smooth Muscle	stomach
6	chr15:39778400-39781600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr15:39778400-39785200	Enhancers	Fetal Stomach	stomach
8	chr15:39778600-39779200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr15:39778800-39780200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr15:39778800-39781400	Enhancers	HMEC	breast
11	chr15:39778800-39781600	Weak transcription	Fetal Kidney	kidney
12	chr15:39778800-39782800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr15:39778800-39788000	Weak transcription	HSMMtube	muscle

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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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