MIR520B (microRNA 520b) - Rat Genome Database

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Gene: MIR520B (microRNA 520b) Homo sapiens
Analyze
Symbol: MIR520B
Name: microRNA 520b
RGD ID: 1603750
HGNC Page HGNC:32105
Description: Enables mRNA base-pairing translational repressor activity. Involved in miRNA-mediated gene silencing by inhibition of translation; positive regulation of complement activation, alternative pathway; and positive regulation of protein localization to cell surface.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: MIRN520B
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381953,701,227 - 53,701,287 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1953,701,227 - 53,701,287 (+)EnsemblGRCh38hg38GRCh38
GRCh371954,204,481 - 54,204,541 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361958,896,292 - 58,896,352 (+)NCBINCBI36Build 36hg18NCBI36
Celera1951,245,570 - 51,245,630 (+)NCBICelera
Cytogenetic Map19q13.42NCBI
HuRef1950,524,126 - 50,524,186 (+)NCBIHuRef
CHM1_11954,206,284 - 54,206,344 (+)NCBICHM1_1
T2T-CHM13v2.01956,780,728 - 56,780,788 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15965474   PMID:16381832   PMID:20190813   PMID:20574151   PMID:21343296   PMID:22319632   PMID:24886421   PMID:25822230   PMID:25824049   PMID:26700671   PMID:26718216   PMID:27997901  
PMID:28042738   PMID:28112380   PMID:28470146   PMID:28515423   PMID:30106218   PMID:30241050   PMID:30407707   PMID:30475986   PMID:30536318   PMID:31858557   PMID:32214367   PMID:32379550  
PMID:32389118   PMID:32497020   PMID:32603335   PMID:33015794   PMID:33116033   PMID:33819467   PMID:35272569   PMID:36473367  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 19q13.41-13.43(chr19:52612432-58581203)x3 copy number gain See cases [RCV000134174] Chr19:52612432..58581203 [GRCh38]
Chr19:53115685..59092570 [GRCh37]
Chr19:57807497..63784382 [NCBI36]
Chr19:19q13.41-13.43		 pathogenic
GRCh38/hg38 19q13.41-13.43(chr19:52955056-58581203)x3 copy number gain See cases [RCV000134139] Chr19:52955056..58581203 [GRCh38]
Chr19:53458309..59092570 [GRCh37]
Chr19:58150121..63784382 [NCBI36]
Chr19:19q13.41-13.43		 pathogenic
GRCh38/hg38 19q13.33-13.43(chr19:50152520-58581203)x3 copy number gain See cases [RCV000135843] Chr19:50152520..58581203 [GRCh38]
Chr19:50655777..59092570 [GRCh37]
Chr19:55347589..63784382 [NCBI36]
Chr19:19q13.33-13.43		 pathogenic
GRCh38/hg38 19q13.42(chr19:53692245-53808292)x3 copy number gain See cases [RCV000141357] Chr19:53692245..53808292 [GRCh38]
Chr19:54195499..54311546 [GRCh37]
Chr19:58887311..59003358 [NCBI36]
Chr19:19q13.42		 uncertain significance
GRCh38/hg38 19q13.41-13.43(chr19:52143873-58445521)x3 copy number gain See cases [RCV000142008] Chr19:52143873..58445521 [GRCh38]
Chr19:52647126..58956888 [GRCh37]
Chr19:57338938..63648700 [NCBI36]
Chr19:19q13.41-13.43		 pathogenic
GRCh38/hg38 19q13.33-13.43(chr19:50191219-58535818)x3 copy number gain See cases [RCV000050883] Chr19:50191219..58535818 [GRCh38]
Chr19:50694476..59047185 [GRCh37]
Chr19:55386288..63738997 [NCBI36]
Chr19:19q13.33-13.43		 pathogenic
GRCh38/hg38 19q13.33-13.43(chr19:49907832-58557889)x3 copy number gain See cases [RCV000052925] Chr19:49907832..58557889 [GRCh38]
Chr19:50411089..59069256 [GRCh37]
Chr19:55102901..63761068 [NCBI36]
Chr19:19q13.33-13.43		 pathogenic
GRCh38/hg38 19q13.41-13.43(chr19:51141518-58539965)x3 copy number gain See cases [RCV000052926] Chr19:51141518..58539965 [GRCh38]
Chr19:51644775..59051332 [GRCh37]
Chr19:56336587..63743144 [NCBI36]
Chr19:19q13.41-13.43		 pathogenic
GRCh38/hg38 19q13.42(chr19:53553042-53899466)x3 copy number gain See cases [RCV000052593] Chr19:53553042..53899466 [GRCh38]
Chr19:54056296..54402720 [GRCh37]
Chr19:58748108..59094532 [NCBI36]
Chr19:19q13.42		 uncertain significance
GRCh38/hg38 19q13.42(chr19:53601298-53773028)x3 copy number gain See cases [RCV000052594] Chr19:53601298..53773028 [GRCh38]
Chr19:54104552..54276282 [GRCh37]
Chr19:58796364..58968094 [NCBI36]
Chr19:19q13.42		 uncertain significance
GRCh38/hg38 19q13.33-13.43(chr19:47908540-58539965)x3 copy number gain See cases [RCV000052914] Chr19:47908540..58539965 [GRCh38]
Chr19:48411797..59051332 [GRCh37]
Chr19:53103609..63743144 [NCBI36]
Chr19:19q13.33-13.43		 pathogenic
GRCh38/hg38 19q13.33-13.43(chr19:47929575-58572206)x3 copy number gain See cases [RCV000052915] Chr19:47929575..58572206 [GRCh38]
Chr19:48432832..59083573 [GRCh37]
Chr19:53124644..63775385 [NCBI36]
Chr19:19q13.33-13.43		 pathogenic
NC_000019.10:g.53536530_53981185dup duplication Silver Russell Syndrome-related disorder [RCV000785667] Chr19:53536530..53981185 [GRCh38]
Chr19:54039784..54484439 [GRCh37]
Chr19:19q13.42		 uncertain significance
miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
CDKN1Ahsa-miR-520bMirtarbaseexternal_infoqRT-PCR//Luciferase reporter assay//Western blotFunctional MTI20190813
CCND1hsa-miR-520bMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI22319632
CD46hsa-miR-520bMirtarbaseexternal_infoELISA//Luciferase reporter assay//qRT-PCR//WesternFunctional MTI20574151
MICAhsa-miR-520bMirtarbaseexternal_infoflow//Luciferase reporter assay//qRT-PCRFunctional MTI19109132
PFKPhsa-miR-520bMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI23389994
CD46hsa-miR-520bTarbaseexternal_infoReporter GenePOSITIVE
CD46hsa-miR-520bTarbaseexternal_infoqPCRPOSITIVE
CD46hsa-miR-520bTarbaseexternal_infoWesternblitPOSITIVE
CD46hsa-miR-520bTarbaseexternal_infoOtherPOSITIVE
MAP3K2hsa-miR-520bOncomiRDBexternal_infoNANA22319632
LAMTOR5hsa-miR-520bOncomiRDBexternal_infoNANA21343296
CD46hsa-miR-520bOncomiRDBexternal_infoNANA20574151

Predicted Targets
Summary Value
Count of predictions:20469
Count of gene targets:8735
Count of transcripts:15929
Interacting mature miRNAs:hsa-miR-520b
Prediction methods:Microtar, Miranda, Pita, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1559110SCL22_HSerum cholesterol level QTL 22 (human)3.590.000241Lipid levelLDL cholesterol193190759457907594Human
1331657COPD9_HChronic obstructive pulmonary disease QTL 9 (human)1.94Chronic airflow obstructionpost-bronchodilator FEV1193102176057021760Human


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
ectoderm
endoderm
entire extraembryonic component
hemolymphoid system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
5 4 1 3 4 3 7 7 1 7 1

Sequence


Ensembl Acc Id: ENST00000384989
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1953,701,227 - 53,701,287 (+)Ensembl
RefSeq Acc Id: NR_030195
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381953,701,227 - 53,701,287 (+)NCBI
GRCh371954,204,481 - 54,204,541 (+)RGD
Celera1951,245,570 - 51,245,630 (+)RGD
HuRef1950,524,126 - 50,524,186 (+)ENTREZGENE
CHM1_11954,206,284 - 54,206,344 (+)NCBI
T2T-CHM13v2.01956,780,728 - 56,780,788 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC MIR520B COSMIC
Ensembl Genes ENSG00000207722 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000384989 ENTREZGENE
GTEx ENSG00000207722 GTEx
HGNC ID HGNC:32105 ENTREZGENE
Human Proteome Map MIR520B Human Proteome Map
miRBase MI0003155 ENTREZGENE
NCBI Gene 574473 ENTREZGENE
OMIM 620595 OMIM
PharmGKB PA164722793 PharmGKB
RNAcentral URS00000ED701 RNACentral
  URS0000759D0E RNACentral
  URS0000D5654E RNACentral