MIR562 (microRNA 562) - Rat Genome Database

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Gene: MIR562 (microRNA 562) Homo sapiens
Analyze
Symbol: MIR562
Name: microRNA 562
RGD ID: 1603110
HGNC Page HGNC:32818
Description: Enables mRNA base-pairing translational repressor activity. Involved in miRNA-mediated gene silencing by mRNA destabilization.
Type: ncrna (Ensembl: miRNA)
RefSeq Status: PROVISIONAL
Previously known as: hsa-mir-562; MIRN562
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382232,172,653 - 232,172,747 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2232,172,653 - 232,172,747 (+)EnsemblGRCh38hg38GRCh38
GRCh372233,037,363 - 233,037,457 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362232,745,606 - 232,745,700 (+)NCBINCBI36Build 36hg18NCBI36
Celera2226,800,556 - 226,800,650 (+)NCBICelera
Cytogenetic Map2q37.1NCBI
HuRef2224,887,987 - 224,888,081 (+)NCBIHuRef
CHM1_12233,043,394 - 233,043,488 (+)NCBICHM1_1
T2T-CHM13v2.02232,659,232 - 232,659,326 (+)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

References
Additional References at PubMed
PMID:16381832   PMID:16505370   PMID:19789318   PMID:25536365   PMID:36286392  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 2q37.1(chr2:231892041-232652305)x1 copy number loss See cases [RCV000133712] Chr2:231892041..232652305 [GRCh38]
Chr2:232756751..233517015 [GRCh37]
Chr2:232464995..233225259 [NCBI36]
Chr2:2q37.1		 pathogenic
GRCh38/hg38 2q36.3-37.3(chr2:228723579-241404867)x3 copy number gain See cases [RCV000134169] Chr2:228723579..241404867 [GRCh38]
Chr2:229588295..242344282 [GRCh37]
Chr2:229296539..241992955 [NCBI36]
Chr2:2q36.3-37.3		 pathogenic
GRCh38/hg38 2q34-37.3(chr2:210579676-242126245)x3 copy number gain See cases [RCV000135934] Chr2:210579676..242126245 [GRCh38]
Chr2:211444400..243059659 [GRCh37]
Chr2:211152645..242717069 [NCBI36]
Chr2:2q34-37.3		 pathogenic
GRCh38/hg38 2q36.3-37.2(chr2:228014149-234976424)x3 copy number gain See cases [RCV000136967] Chr2:228014149..234976424 [GRCh38]
Chr2:228878865..235885068 [GRCh37]
Chr2:228587109..235549807 [NCBI36]
Chr2:2q36.3-37.2		 pathogenic
GRCh38/hg38 2q32.2-37.3(chr2:189436149-241841232)x3 copy number gain See cases [RCV000142307] Chr2:189436149..241841232 [GRCh38]
Chr2:190300875..242783384 [GRCh37]
Chr2:190009120..242432057 [NCBI36]
Chr2:2q32.2-37.3		 pathogenic
GRCh38/hg38 2q35-37.3(chr2:218101759-242126245)x3 copy number gain See cases [RCV000143216] Chr2:218101759..242126245 [GRCh38]
Chr2:218966482..243059659 [GRCh37]
Chr2:218674727..242717069 [NCBI36]
Chr2:2q35-37.3		 pathogenic
GRCh38/hg38 2q37.1-37.3(chr2:231770279-242126245)x1 copy number loss See cases [RCV000148260] Chr2:231770279..242126245 [GRCh38]
Chr2:232634989..243059659 [GRCh37]
Chr2:232343233..242717069 [NCBI36]
Chr2:2q37.1-37.3		 pathogenic
GRCh38/hg38 2q37.1-37.3(chr2:231770279-242126245)x1 copy number loss See cases [RCV000050304] Chr2:231770279..242126245 [GRCh38]
Chr2:232634989..243059659 [GRCh37]
Chr2:232343233..242717069 [NCBI36]
Chr2:2q37.1-37.3		 pathogenic
GRCh38/hg38 2q32.3-37.3(chr2:194898783-236473913)x3 copy number gain See cases [RCV000051119] Chr2:194898783..236473913 [GRCh38]
Chr2:195763507..237382556 [GRCh37]
Chr2:195471752..237047295 [NCBI36]
Chr2:2q32.3-37.3		 pathogenic
GRCh38/hg38 2q36.3-37.3(chr2:226978129-236886599)x1 copy number loss See cases [RCV000052637] Chr2:226978129..236886599 [GRCh38]
Chr2:227842845..237795242 [GRCh37]
Chr2:227551089..237459981 [NCBI36]
Chr2:2q36.3-37.3		 pathogenic
GRCh38/hg38 2q36.3-37.2(chr2:227343278-235339168)x1 copy number loss See cases [RCV000052638] Chr2:227343278..235339168 [GRCh38]
Chr2:228207994..236247812 [GRCh37]
Chr2:227916238..235912551 [NCBI36]
Chr2:2q36.3-37.2		 pathogenic
GRCh38/hg38 2q37.1-37.3(chr2:231375505-242065208)x1 copy number loss Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052639]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052639]|See cases [RCV000052639] Chr2:231375505..242065208 [GRCh38]
Chr2:232240216..243007359 [GRCh37]
Chr2:231948460..242656032 [NCBI36]
Chr2:2q37.1-37.3		 pathogenic
GRCh38/hg38 2q32.2-37.3(chr2:188818195-242065208)x3 copy number gain See cases [RCV000052958] Chr2:188818195..242065208 [GRCh38]
Chr2:189682921..243007359 [GRCh37]
Chr2:189391166..242656032 [NCBI36]
Chr2:2q32.2-37.3		 pathogenic
GRCh38/hg38 2q32.2-37.3(chr2:190310736-241892770)x3 copy number gain See cases [RCV000052959] Chr2:190310736..241892770 [GRCh38]
Chr2:191175462..242834921 [GRCh37]
Chr2:190883707..242483594 [NCBI36]
Chr2:2q32.2-37.3		 pathogenic
GRCh38/hg38 2q32.3-37.3(chr2:193122313-241074980)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052960]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052960]|See cases [RCV000052960] Chr2:193122313..241074980 [GRCh38]
Chr2:193987039..242014395 [GRCh37]
Chr2:193695284..241663068 [NCBI36]
Chr2:2q32.3-37.3		 pathogenic
GRCh38/hg38 2q36.1-37.3(chr2:223992431-242126245)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052972]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052972]|See cases [RCV000052972] Chr2:223992431..242126245 [GRCh38]
Chr2:224857148..243059659 [GRCh37]
Chr2:224565392..242717069 [NCBI36]
Chr2:2q36.1-37.3		 pathogenic
GRCh38/hg38 2q36.3-37.3(chr2:227803148-242086301)x3 copy number gain See cases [RCV000052973] Chr2:227803148..242086301 [GRCh38]
Chr2:228667864..243028452 [GRCh37]
Chr2:228376108..242677125 [NCBI36]
Chr2:2q36.3-37.3		 pathogenic
NC_000002.11:g.(?_233028159)_(233201350_?)dup duplication Perlman syndrome [RCV000708026] Chr2:232163449..232336640 [GRCh38]
Chr2:233028159..233201350 [GRCh37]
Chr2:2q37.1		 uncertain significance
NG_032572.1:g.(180137_206876)_(207051_253743)del deletion Perlman syndrome [RCV000024120] Chr2:232163458..232163633 [GRCh38]
Chr2:2q37.1		 pathogenic
GRCh38/hg38 2q37.1(chr2:232154529-232177529)x0 copy number loss Perlman syndrome [RCV002511172] Chr2:232154529..232177529 [GRCh38]
Chr2:2q37.1		 pathogenic
miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
EYA1hsa-miR-562Mirtarbaseexternal_infoLuciferase reporter assayFunctional MTI19789318
METhsa-miR-562Mirtarbaseexternal_infoLuciferase reporter assayNon-Functional MTI19789318

Predicted Targets
Summary Value
Count of predictions:10854
Count of gene targets:5277
Count of transcripts:9258
Interacting mature miRNAs:hsa-miR-562
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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system adipose tissue appendage entire extraembryonic component
High
Medium 3 3 1
Low 22 21 22 9 117 10 53 16 35 20 34 30 7 17 1
Below cutoff 50 16 29 6 27 6 53 33 44 18 28 40 2 3 28 2

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000384894
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl2232,172,653 - 232,172,747 (+)Ensembl
RefSeq Acc Id: NR_030288
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh382232,172,653 - 232,172,747 (+)NCBI
GRCh372233,037,363 - 233,037,457 (+)RGD
Celera2226,800,556 - 226,800,650 (+)RGD
HuRef2224,887,987 - 224,888,081 (+)ENTREZGENE
CHM1_12233,043,394 - 233,043,488 (+)NCBI
T2T-CHM13v2.02232,659,232 - 232,659,326 (+)NCBI
Sequence:

Additional Information

Database Acc Id Source(s)
COSMIC MIR562 COSMIC
Ensembl Genes ENSG00000207626 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000384894 ENTREZGENE
GTEx ENSG00000207626 GTEx
HGNC ID HGNC:32818 ENTREZGENE
Human Proteome Map MIR562 Human Proteome Map
miRBase MI0003568 ENTREZGENE
NCBI Gene 693147 ENTREZGENE
PharmGKB PA164722860 PharmGKB
RNAcentral URS000075A5E2 RNACentral
  URS000075A7C1 RNACentral