MIR454 (microRNA 454) - Rat Genome Database
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Gene: MIR454 (microRNA 454) Homo sapiens
Analyze
Symbol: MIR454
Name: microRNA 454
RGD ID: 2290264
HGNC Page HGNC
Description: microRNAs (miRNAs) are short (20-24 nt) non-coding RNAs that are involved in post-transcriptional regulation of gene expression in multicellular organisms by affecting both the stability and translation of mRNAs. miRNAs are transcribed by RNA polymerase II as part of capped and polyadenylated primary transcripts (pri-miRNAs) that can be either protein-coding or non-coding. The primary transcript is cleaved by the Drosha ribonuclease III enzyme to produce an approximately 70-nt stem-loop precursor miRNA (pre-miRNA), which is further cleaved by the cytoplasmic Dicer ribonuclease to generate the mature miRNA and antisense miRNA star (miRNA*) products. The mature miRNA is incorporated into a RNA-induced silencing complex (RISC), which recognizes target mRNAs through imperfect base pairing with the miRNA and most commonly results in translational inhibition or destabilization of the target mRNA. The RefSeq represents the predicted microRNA stem-loop. [provided by RefSeq, Sep 2009]
Type: ncrna
RefSeq Status: PROVISIONAL
Also known as: hsa-mir-454; mir-454; MIRN454
RGD Orthologs
Dog
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1759,137,758 - 59,137,872 (-)EnsemblGRCh38hg38GRCh38
GRCh381759,137,758 - 59,137,872 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371757,215,119 - 57,215,233 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361754,569,900 - 54,570,014 (-)NCBINCBI36hg18NCBI36
Celera1753,678,019 - 53,678,133 (-)NCBI
Cytogenetic Map17q22NCBI
HuRef1752,576,088 - 52,576,202 (-)NCBIHuRef
CHM1_11757,280,614 - 57,280,728 (-)NCBICHM1_1
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
References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16381832   PMID:16954537   PMID:17604727   PMID:21037258   PMID:24515954   PMID:24685242   PMID:25115181   PMID:25824771   PMID:25880599   PMID:26287602   PMID:26296312   PMID:26297548  
PMID:26460070   PMID:26646931   PMID:26976451   PMID:27010136   PMID:27261580   PMID:27588500   PMID:28182000   PMID:29039488   PMID:29080452   PMID:29115379   PMID:29286124   PMID:29286172  
PMID:30106109   PMID:30138897   PMID:30352837   PMID:30367833   PMID:30413650   PMID:30613008   PMID:30638403   PMID:30809286   PMID:30810117   PMID:31181312   PMID:31270028   PMID:32098924  
PMID:32165166   PMID:32170966  


Genomics

Comparative Map Data
MIR454
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1759,137,758 - 59,137,872 (-)EnsemblGRCh38hg38GRCh38
GRCh381759,137,758 - 59,137,872 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371757,215,119 - 57,215,233 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361754,569,900 - 54,570,014 (-)NCBINCBI36hg18NCBI36
Celera1753,678,019 - 53,678,133 (-)NCBI
Cytogenetic Map17q22NCBI
HuRef1752,576,088 - 52,576,202 (-)NCBIHuRef
CHM1_11757,280,614 - 57,280,728 (-)NCBICHM1_1
MIR454
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl933,714,192 - 33,714,261 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1933,714,192 - 33,714,261 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1

miRNA Target Status

Confirmed Targets
Gene TargetMature miRNAMethod NameResult TypeData TypeSupport TypePMID
MINPP1hsa-miR-454-5pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
SMAD4hsa-miR-454-3pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI23393589
KCTD12hsa-miR-454-3pMirtarbaseexternal_infoCLASHFunctional MTI (Weak)23622248
SMAD4hsa-miR-454-3pOncomiRDBexternal_infoNANA23393589

Predicted Targets
Summary Value
Count of predictions:27141
Count of gene targets:10994
Count of transcripts:21032
Interacting mature miRNAs:hsa-miR-454-3p, hsa-miR-454-5p
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 1 1 4 3
Low 89 29 46 22 207 26 151 59 134 52 128 141 8 49 2
Below cutoff 104 66 36 13 23 6 165 85 149 14 65 50 8 32 123 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000390180
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1759,137,758 - 59,137,872 (-)Ensembl
RefSeq Acc Id: NR_030411
RefSeq Status: PROVISIONAL
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381759,137,758 - 59,137,872 (-)NCBI
GRCh371757,215,119 - 57,215,233 (-)RGD
Celera1753,678,019 - 53,678,133 (-)RGD
HuRef1752,576,088 - 52,576,202 (-)RGD
CHM1_11757,280,614 - 57,280,728 (-)NCBI
Sequence:

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 17q23.1-25.1(chr17:36449220-75053130)x3 copy number gain See cases [RCV000137437] Chr17:36449220..75053130 [GRCh38]
Chr17:57595736..73049225 [GRCh37]
Chr17:54950518..70560820 [NCBI36]
Chr17:17q23.1-25.1		 pathogenic
GRCh38/hg38 17q22-23.1(chr17:57418806-59735464)x1 copy number loss See cases [RCV000140211] Chr17:57418806..59735464 [GRCh38]
Chr17:55496167..57812825 [GRCh37]
Chr17:52851166..55167607 [NCBI36]
Chr17:17q22-23.1		 pathogenic
GRCh38/hg38 17q21.33-24.2(chr17:36449220-68170214)x3 copy number gain See cases [RCV000050957] Chr17:36449220..68170214 [GRCh38]
Chr17:48563237..65936105 [GRCh37]
Chr17:45918236..63677950 [NCBI36]
Chr17:17q21.33-24.2		 pathogenic
GRCh38/hg38 17q23.2-25.3(chr17:36449220-83086677)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052483]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052483]|See cases [RCV000052483] Chr17:36449220..83086677 [GRCh38]
Chr17:58617905..81044553 [GRCh37]
Chr17:55972687..78637842 [NCBI36]
Chr17:17q23.2-25.3		 pathogenic
NC_000017.10:g.57075470_57235248del159779 deletion Mulibrey nanism syndrome [RCV000785665] Chr17:58998109..59157887 [GRCh38]
Chr17:57075470..57235248 [GRCh37]
Chr17:17q22		 likely pathogenic

Additional Information

Database Acc Id Source(s)
COSMIC MIR454 COSMIC
Ensembl Genes ENSG00000211514 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000390180 ENTREZGENE
GTEx ENSG00000211514 GTEx
HGNC ID HGNC:33137 ENTREZGENE
Human Proteome Map MIR454 Human Proteome Map
miRBase MI0003820 ENTREZGENE
NCBI Gene 768216 ENTREZGENE
PharmGKB PA164722726 PharmGKB
RNAcentral URS000031602A RNACentral
  URS00004F77ED RNACentral
  URS000070F95C RNACentral