Variant report

Variant	rs55742366
Chromosome Location	chr5:15926089-15926090
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10042283	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10520829	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10520830	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10520831	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12186586	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12188160	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12188594	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12517809	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12653963	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13153362	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13154254	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13164363	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13189148	0.88[EUR][1000 genomes]
rs3935972	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4410637	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6874587	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6876718	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6878591	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6878775	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6886664	0.89[EUR][1000 genomes]
rs6887439	0.89[EUR][1000 genomes]
rs6888294	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6892388	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880755	chr5:15670377-15938553	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
2	nsv461986	chr5:15854098-15943683	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv597292	chr5:15854098-15943683	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv830216	chr5:15860662-16060420	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region miRNA	4 gene(s)	inside rSNPs	diseases
5	nsv427712	chr5:15883439-16055856	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA	4 gene(s)	inside rSNPs	diseases
6	nsv4735	chr5:15916346-15961432	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:15913800-15936000	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr5:15914000-15926800	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr5:15914000-15940000	Weak transcription	Colon Smooth Muscle	Colon
4	chr5:15914600-15928200	Weak transcription	Fetal Brain Male	brain
5	chr5:15915000-15928000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr5:15919000-15926800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr5:15919000-15926800	Weak transcription	Brain Anterior Caudate	brain
8	chr5:15919000-15926800	Weak transcription	Brain Hippocampus Middle	brain
9	chr5:15919000-15926800	Weak transcription	Brain Substantia Nigra	brain
10	chr5:15919000-15928000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr5:15919000-15928200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr5:15919200-15928200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr5:15919400-15927600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr5:15919600-15933600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr5:15920000-15926600	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr5:15920000-15933400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr5:15920200-15926800	Weak transcription	Fetal Lung	lung
18	chr5:15920400-15928000	Weak transcription	Fetal Stomach	stomach
19	chr5:15922800-15928000	Weak transcription	Ovary	ovary
20	chr5:15923200-15929200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr5:15923400-15927200	Weak transcription	Fetal Brain Female	brain
22	chr5:15924200-15928200	Weak transcription	Esophagus	oesophagus
23	chr5:15924400-15926800	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr5:15925200-15927400	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr5:15925200-15928200	Weak transcription	Left Ventricle	heart
26	chr5:15925200-15928400	Weak transcription	Adipose Nuclei	Adipose
27	chr5:15925600-15926600	Weak transcription	Brain Germinal Matrix	brain
28	chr5:15925600-15927200	Weak transcription	Right Ventricle	heart
29	chr5:15925600-15929400	Weak transcription	NHLF	lung
30	chr5:15925600-15929800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr5:15925600-15929800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr5:15925800-15926800	Weak transcription	Fetal Heart	heart
33	chr5:15926000-15928000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr5:15926000-15935600	Weak transcription	Stomach Smooth Muscle	stomach

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