Variant report

Variant	rs58429890
Chromosome Location	chr15:42383530-42383531
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs12899166	1.00[AMR][1000 genomes]
rs56012626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57207988	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61733873	1.00[AMR][1000 genomes]
rs74011709	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv1035998	chr15:42098896-42434254	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	38 gene(s)	inside rSNPs	diseases
3	nsv529687	chr15:42157320-42621682	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
4	nsv1049445	chr15:42239738-42830484	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
5	nsv542366	chr15:42239738-42830484	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers 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 miRNA target site	73 gene(s)	inside rSNPs	diseases
6	nsv471683	chr15:42334375-42502982	Enhancers Bivalent Enhancer Genic enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
7	nsv904131	chr15:42343794-42390223	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
8	nsv904132	chr15:42343794-42398046	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
9	nsv832985	chr15:42371482-42564966	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
10	nsv436201	chr15:42380264-42387429	Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42369800-42385000	Weak transcription	Right Atrium	heart
2	chr15:42373400-42384400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr15:42373400-42384400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:42376800-42384400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr15:42377400-42384800	Weak transcription	Esophagus	oesophagus
6	chr15:42377600-42384800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr15:42377800-42384200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr15:42378200-42384800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr15:42381600-42386600	Weak transcription	Fetal Thymus	thymus
10	chr15:42381800-42384800	Weak transcription	Right Ventricle	heart
11	chr15:42382200-42386600	Weak transcription	Pancreas	Pancrea
12	chr15:42382400-42384200	Enhancers	NHEK	skin
13	chr15:42382400-42384400	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr15:42382400-42384400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr15:42382600-42384800	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr15:42382600-42385600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr15:42382800-42385400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr15:42383000-42384200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:42383000-42384200	Weak transcription	HMEC	breast
20	chr15:42383000-42385200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr15:42383000-42386200	Weak transcription	Gastric	stomach
22	chr15:42383200-42383600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr15:42383200-42383800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr15:42383200-42384000	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr15:42383200-42384000	Weak transcription	Hela-S3	cervix
26	chr15:42383200-42384400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
27	chr15:42383400-42383800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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