Mouse Gene Eif3f (ENSMUST00000033342.6) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus eukaryotic translation initiation factor 3, subunit F (Eif3f), mRNA. (from RefSeq NM_025344)
Gencode Transcript: ENSMUST00000033342.6
Gencode Gene: ENSMUSG00000031029.6
Transcript (Including UTRs)
   Position: mm10 chr7:108,934,417-108,942,951 Size: 8,535 Total Exon Count: 8 Strand: +
Coding Region
   Position: mm10 chr7:108,934,432-108,941,538 Size: 7,107 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:108,934,417-108,942,951)mRNA (may differ from genome)Protein (361 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
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PubMedReactomeSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: EIF3F_MOUSE
DESCRIPTION: RecName: Full=Eukaryotic translation initiation factor 3 subunit F; Short=eIF3f; AltName: Full=Deubiquitinating enzyme eIF3f; EC=3.4.19.12; AltName: Full=Eukaryotic translation initiation factor 3 subunit 5; AltName: Full=eIF-3-epsilon; AltName: Full=eIF3 p47;
FUNCTION: Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is required for several steps in the initiation of protein synthesis. The eIF-3 complex associates with the 40S ribosome and facilitates the recruitment of eIF-1, eIF-1A, eIF-2:GTP:methionyl-tRNAi and eIF-5 to form the 43S preinitiation complex (43S PIC). The eIF-3 complex stimulates mRNA recruitment to the 43S PIC and scanning of the mRNA for AUG recognition. The eIF-3 complex is also required for disassembly and recycling of post-termination ribosomal complexes and subsequently prevents premature joining of the 40S and 60S ribosomal subunits prior to initiation.
FUNCTION: Deubiquitinates activated NOTCH1, promoting its nuclear import, thereby acting as a positive regulator of Notch signaling (By similarity).
CATALYTIC ACTIVITY: Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C- terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).
SUBUNIT: Component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is composed of 13 subunits: EIF3A, EIF3B, EIF3C, EIF3D, EIF3E, EIF3F, EIF3G, EIF3H, EIF3I, EIF3J, EIF3K, EIF3L and EIF3M. The eIF-3 complex appears to include 3 stable modules: module A is composed of EIF3A, EIF3B, EIF3G and EIF3I; module B is composed of EIF3F, EIF3H, and EIF3M; and module C is composed of EIF3C, EIF3D, EIF3E, EIF3K and EIF3L. EIF3C of module C binds EIF3B of module A and EIF3H of module B, thereby linking the three modules. EIF3J is a labile subunit that binds to the eIF-3 complex via EIF3B. The eIF-3 complex may interact with RPS6KB1 under conditions of nutrient depletion. Mitogenic stimulation may lead to binding and activation of a complex composed of MTOR and RPTOR, leading to phosphorylation and release of RPS6KB1 and binding of EIF4B to eIF-3. Interacts with RNF139; the interaction leads to protein translation inhibitions in a ubiquitination-dependent manner. Interacts with DTX1, the interaction is required for deubiquitinating activity towards NOTCH1 (By similarity).
SUBCELLULAR LOCATION: Cytoplasm (By similarity).
DOMAIN: The MPN domain mediates deubiquitinating activity (By similarity).
PTM: Phosphorylated. Phosphorylation is enhanced upon serum stimulation (By similarity).
SIMILARITY: Belongs to the eIF-3 subunit F family.
SIMILARITY: Contains 1 MPN (JAB/Mov34) domain.

-  Primer design for this transcript
 

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-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
3' UTR -425.101413-0.301 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000555 - JAB1_Mov34_MPN_PAD1
IPR024969 - Rpn11/EIF3F_C

Pfam Domains:
PF01398 - JAB1/Mov34/MPN/PAD-1 ubiquitin protease
PF13012 - Maintenance of mitochondrial structure and function

ModBase Predicted Comparative 3D Structure on Q9DCH4
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologGenome BrowserGenome BrowserNo ortholog
Gene Details     
Gene Sorter     
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Protein SequenceProtein Sequence Protein SequenceProtein Sequence 
AlignmentAlignment AlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003743 translation initiation factor activity
GO:0004843 thiol-dependent ubiquitin-specific protease activity
GO:0005515 protein binding
GO:0008233 peptidase activity
GO:0008234 cysteine-type peptidase activity
GO:0016787 hydrolase activity
GO:0031369 translation initiation factor binding
GO:0036459 thiol-dependent ubiquitinyl hydrolase activity

Biological Process:
GO:0006412 translation
GO:0006413 translational initiation
GO:0006508 proteolysis
GO:0016579 protein deubiquitination
GO:0075522 IRES-dependent viral translational initiation

Cellular Component:
GO:0005737 cytoplasm
GO:0005852 eukaryotic translation initiation factor 3 complex
GO:0071541 eukaryotic translation initiation factor 3 complex, eIF3m


-  Descriptions from all associated GenBank mRNAs
  AK152037 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830045M21 product:eukaryotic translation initiation factor 3, subunit 5 (epsilon), full insert sequence.
AK002778 - Mus musculus adult male kidney cDNA, RIKEN full-length enriched library, clone:0610037M02 product:eukaryotic translation initiation factor 3, subunit 5 (epsilon), full insert sequence.
AK003372 - Mus musculus 18-day embryo whole body cDNA, RIKEN full-length enriched library, clone:1110003L04 product:eukaryotic translation initiation factor 3, subunit 5 (epsilon), full insert sequence.
AK088537 - Mus musculus 2 days neonate thymus thymic cells cDNA, RIKEN full-length enriched library, clone:E430019L21 product:eukaryotic translation initiation factor 3, subunit 5 (epsilon), full insert sequence.
AK136797 - Mus musculus adult male diencephalon cDNA, RIKEN full-length enriched library, clone:9330019A10 product:eukaryotic translation initiation factor 3, subunit 5 (epsilon), full insert sequence.
AK010333 - Mus musculus ES cells cDNA, RIKEN full-length enriched library, clone:2410002E12 product:EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT 5 (EIF-3 EPSILON) (EIF3-P47) homolog [Homo sapiens], full insert sequence.
BC070473 - Mus musculus eukaryotic translation initiation factor 3, subunit F, mRNA (cDNA clone MGC:99435 IMAGE:30634857), complete cds.
BC083190 - Mus musculus eukaryotic translation initiation factor 3, subunit F, mRNA (cDNA clone MGC:90606 IMAGE:30358339), complete cds.
BC050223 - Mus musculus, clone IMAGE:6430359, mRNA.
AK193503 - Mus musculus cDNA, clone:Y1G0112I06, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK197956 - Mus musculus cDNA, clone:Y1G0126K21, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK190701 - Mus musculus cDNA, clone:Y1G0103I19, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK217928 - Mus musculus cDNA, clone:Y2G0143H12, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK192917 - Mus musculus cDNA, clone:Y1G0110F20, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK186458 - Mus musculus cDNA, clone:Y0G0137G11, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK200417 - Mus musculus cDNA, clone:Y1G0134H23, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK214434 - Mus musculus cDNA, clone:Y2G0131M01, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK209599 - Mus musculus cDNA, clone:Y2G0115J22, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
EF437360 - Mus musculus isolate NTA3K14 eukaryotic translation initiation factor 3 subunit 5 epsilon (Eif3s5) mRNA, partial cds.
AY061808 - Mus musculus translation initiation factor-3 subunit 5 mRNA, partial cds.
AK214157 - Mus musculus cDNA, clone:Y2G0130N14, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK207106 - Mus musculus cDNA, clone:Y2G0106P03, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK204915 - Mus musculus cDNA, clone:Y1G0150A14, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK201842 - Mus musculus cDNA, clone:Y1G0139I15, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK217304 - Mus musculus cDNA, clone:Y2G0141F14, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK190563 - Mus musculus cDNA, clone:Y1G0103C06, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK194257 - Mus musculus cDNA, clone:Y1G0114M05, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK187302 - Mus musculus cDNA, clone:Y0G0141C07, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK190312 - Mus musculus cDNA, clone:Y1G0102F24, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK194614 - Mus musculus cDNA, clone:Y1G0115O10, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK195637 - Mus musculus cDNA, clone:Y1G0119C08, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK198156 - Mus musculus cDNA, clone:Y1G0127E15, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK198457 - Mus musculus cDNA, clone:Y1G0128D21, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK211325 - Mus musculus cDNA, clone:Y2G0121G01, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK211674 - Mus musculus cDNA, clone:Y2G0122I02, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.
AK216628 - Mus musculus cDNA, clone:Y2G0139A01, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000033342, based on BLAT search.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu03013 - RNA transport

Reactome (by CSHL, EBI, and GO)

Protein Q9DCH4 (Reactome details) participates in the following event(s):

R-MMU-72676 eIF3 and eIF1A bind to the 40S subunit
R-MMU-157849 Formation of translation initiation complexes containing mRNA that does not circularize
R-MMU-72691 Formation of the 43S pre-initiation complex
R-MMU-72621 Ribosomal scanning
R-MMU-156823 Association of phospho-L13a with GAIT element of Ceruloplasmin mRNA
R-MMU-72689 Formation of a pool of free 40S subunits
R-MMU-72649 Translation initiation complex formation
R-MMU-72695 Formation of the ternary complex, and subsequently, the 43S complex
R-MMU-72737 Cap-dependent Translation Initiation
R-MMU-72702 Ribosomal scanning and start codon recognition
R-MMU-156827 L13a-mediated translation
R-MMU-72662 Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S
R-MMU-72613 Eukaryotic Translation Initiation
R-MMU-72766 Translation
R-MMU-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: EIF3F_MOUSE, Eif3s5, NM_025344, Q5XJV3, Q9DCH4, uc009jdc.1, uc009jdc.2, uc009jdc.3
UCSC ID: uc009jdc.3
RefSeq Accession: NM_025344
Protein: Q9DCH4 (aka EIF3F_MOUSE)
CCDS: CCDS21731.1

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.