Variant report

Variant	rs17485515
Chromosome Location	chr5:125056207-125056208
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs13154204	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13154792	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13177299	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13185564	0.84[AMR][1000 genomes]
rs17484283	0.85[AMR][1000 genomes]
rs2029543	0.84[AMR][1000 genomes]
rs6595628	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs67285507	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6868663	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6885482	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7708922	0.85[AMR][1000 genomes]
rs7733692	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7734242	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[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:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:125050000-125056600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr5:125051000-125057200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr5:125053800-125056600	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr5:125055000-125056400	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr5:125055000-125057400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr5:125055800-125056600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr5:125056000-125056800	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr5:125056000-125057200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr5:125056000-125061200	Weak transcription	Brain Hippocampus Middle	brain
10	chr5:125056000-125067800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr5:125056200-125061200	Weak transcription	Brain Cingulate Gyrus	brain
12	chr5:125056200-125061400	Weak transcription	Fetal Brain Female	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
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