Variant report

Variant	rs17153165
Chromosome Location	chr5:125055398-125055399
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10056409	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10064620	0.81[ASN][1000 genomes]
rs13154003	0.83[ASN][1000 genomes]
rs1352738	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1490983	0.84[ASN][1000 genomes]
rs1490986	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1490992	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17153106	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17153111	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1873483	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2201044	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28547260	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28696180	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28703569	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35433994	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4620020	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6595624	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6878672	0.92[EUR][1000 genomes]
rs7706068	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7709204	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[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	nsv1030992	chr5:124708549-125391503	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv537892	chr5:124708549-125391503	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv534468	chr5:124943170-125634960	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv521940	chr5:125049170-125092500	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv2758014	chr5:125050863-125287909	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	esv2759376	chr5:125050863-125287909	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:125021800-125055400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr5:125050000-125056600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr5:125051000-125057200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr5:125051600-125055400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr5:125052400-125055600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr5:125053200-125055400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr5:125053400-125055600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr5:125053600-125055400	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr5:125053600-125055600	Weak transcription	NH-A	brain
10	chr5:125053800-125056600	Enhancers	Cortex derived primary cultured neurospheres	brain
11	chr5:125054000-125055600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr5:125054400-125055400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr5:125054800-125056000	Enhancers	Rectal Mucosa Donor 31	rectum
14	chr5:125055000-125055600	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr5:125055000-125055600	Enhancers	Pancreatic Islets	Pancreatic Islet
16	chr5:125055000-125056400	Enhancers	HUES64 Cell Line	embryonic stem cell
17	chr5:125055000-125057400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr5:125055200-125055600	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr5:125055200-125055600	Enhancers	Brain Anterior Caudate	brain
20	chr5:125055200-125055600	Enhancers	Brain Hippocampus Middle	brain
21	chr5:125055200-125055600	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr5:125055200-125056000	Enhancers	Fetal Kidney	kidney
23	chr5:125055200-125056000	Enhancers	Skeletal Muscle Male	skeletal muscle
24	chr5:125055200-125056200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr5:125055200-125056200	Flanking Active TSS	HepG2	liver

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