Variant report

Variant	rs16976479
Chromosome Location	chr15:55988538-55988539
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11853232	0.94[AMR][1000 genomes]
rs1438914	0.89[AMR][1000 genomes]
rs16976434	0.81[CEU][hapmap];0.94[AMR][1000 genomes]
rs2053335	0.85[EUR][1000 genomes]
rs2414428	0.91[CEU][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs36016255	0.94[AMR][1000 genomes]
rs4337238	0.83[EUR][1000 genomes]
rs56190205	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56220110	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs56233400	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs720508	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73408312	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73408332	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73423329	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73423335	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs999303	0.84[AMR][1000 genomes];0.89[EUR][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	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv948522	chr15:55639867-56032099	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv457157	chr15:55722213-56255774	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv569539	chr15:55722213-56255774	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
6	nsv1049774	chr15:55759573-56044600	Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
7	nsv833017	chr15:55965957-56157912	Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55960800-55995800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr15:55986200-55988600	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr15:55986600-55989200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr15:55986800-55988800	Genic enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:55986800-55992600	Weak transcription	GM12878-XiMat	blood
6	chr15:55987000-55988600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr15:55987200-55989800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr15:55987600-55995600	Weak transcription	Fetal Kidney	kidney
9	chr15:55987800-55988800	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr15:55987800-55996000	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr15:55988000-55997200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr15:55988200-55993800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr15:55988400-55988800	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr15:55988400-55989600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr15:55988400-55995000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:55988400-55995600	Weak transcription	Hela-S3	cervix

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dbSNP/dbVar ID: rs12345 /nsv7879
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