Variant report

Variant	rs7733725
Chromosome Location	chr5:152011505-152011506
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10477025	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12054984	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12055147	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12655008	0.95[ASN][1000 genomes]
rs2961752	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2961753	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2964215	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2964221	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2964244	0.82[ASN][1000 genomes]
rs2964245	0.82[ASN][1000 genomes]
rs2964251	0.86[ASN][1000 genomes]
rs2964253	0.85[ASN][1000 genomes]
rs2964254	0.92[ASN][1000 genomes]
rs2964260	0.95[ASN][1000 genomes]
rs2964263	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34106489	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34790040	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4457062	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6870096	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023676	chr5:151979253-152925064	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv537927	chr5:151979253-152925064	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv5074	chr5:152010691-152055779	Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7733725	RPS14	cis	cerebellum	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:152002600-152013600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr5:152002600-152014000	Weak transcription	Brain Substantia Nigra	brain
3	chr5:152004200-152014200	Weak transcription	Spleen	Spleen
4	chr5:152005600-152013800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr5:152005800-152012800	Weak transcription	Brain Germinal Matrix	brain
6	chr5:152006400-152014400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr5:152008400-152012200	Weak transcription	Right Atrium	heart
8	chr5:152008400-152013400	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr5:152008400-152022800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr5:152009000-152016800	Enhancers	Fetal Brain Female	brain
11	chr5:152010400-152011800	Enhancers	Aorta	Aorta
12	chr5:152010400-152013600	Enhancers	Fetal Lung	lung
13	chr5:152010600-152011800	Enhancers	Fetal Brain Male	brain
14	chr5:152011000-152012400	Enhancers	Pancreatic Islets	Pancreatic Islet
15	chr5:152011200-152012800	Enhancers	Placenta Amnion	Placenta Amnion
16	chr5:152011400-152011600	Enhancers	Ovary	ovary
17	chr5:152011400-152012600	Enhancers	Fetal Kidney	kidney

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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