Mouse Gene Ap4e1 (ENSMUST00000002063.14) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus adaptor-related protein complex AP-4, epsilon 1 (Ap4e1), mRNA. (from RefSeq NM_175550)
Gencode Transcript: ENSMUST00000002063.14
Gencode Gene: ENSMUSG00000001998.15
Transcript (Including UTRs)
   Position: mm10 chr2:127,008,730-127,067,909 Size: 59,180 Total Exon Count: 21 Strand: +
Coding Region
   Position: mm10 chr2:127,008,754-127,066,702 Size: 57,949 Coding Exon Count: 21 

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 (chr2:127,008,730-127,067,909)mRNA (may differ from genome)Protein (1122 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedReactomeSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: AP4E1_MOUSE
DESCRIPTION: RecName: Full=AP-4 complex subunit epsilon-1; AltName: Full=AP-4 adapter complex subunit epsilon; AltName: Full=Adapter-related protein complex 4 subunit epsilon-1; AltName: Full=Epsilon subunit of AP-4; AltName: Full=Epsilon-adaptin;
FUNCTION: Subunit of novel type of clathrin- or non-clathrin- associated protein coat involved in targeting proteins from the trans-Golgi network (TGN) to the endosomal-lysosomal system (By similarity).
SUBUNIT: Adapter-like complex 4 (AP-4) is a heterotetramer composed of two large adaptins (epsilon-type subunit AP4E1 and beta-type subunit AP4B1), a medium adaptin (mu-type subunit AP4M1) and a small adaptin (sigma-type AP4S1) (By similarity).
SUBCELLULAR LOCATION: Golgi apparatus, trans-Golgi network (By similarity). Note=Associated with the trans-Golgi network. Found in soma and dendritic shafts of neuronal cells (By similarity).
SIMILARITY: Belongs to the adaptor complexes large subunit family.
SEQUENCE CAUTION: Sequence=AK144636; Type=Frameshift; Positions=303;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -9.6024-0.400 Picture PostScript Text
3' UTR -321.401207-0.266 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
IPR017109 - AP4_complex_esu
IPR011989 - ARM-like
IPR016024 - ARM-type_fold
IPR002553 - Clathrin/coatomer_adapt-like_N
IPR011710 - Coatomer_bsu_C

Pfam Domains:
PF01602 - Adaptin N terminal region
PF14807 - Adaptin AP4 complex epsilon appendage platform

SCOP Domains:
48371 - ARM repeat
48431 - Lipovitellin-phosvitin complex, superhelical domain

ModBase Predicted Comparative 3D Structure on Q80V94
FrontTopSide
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 orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
GenBankRGDEnsembl   
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0006886 intracellular protein transport
GO:0015031 protein transport
GO:0016192 vesicle-mediated transport

Cellular Component:
GO:0005794 Golgi apparatus
GO:0005802 trans-Golgi network
GO:0016020 membrane
GO:0030117 membrane coat
GO:0030124 AP-4 adaptor complex


-  Descriptions from all associated GenBank mRNAs
  AK143351 - Mus musculus 2 days pregnant adult female ovary cDNA, RIKEN full-length enriched library, clone:E330013D22 product:adaptor-related protein complex AP-4, epsilon 1, full insert sequence.
AK163701 - Mus musculus 10 days neonate cerebellum cDNA, RIKEN full-length enriched library, clone:B930033D06 product:adaptor-related protein complex AP-4, epsilon 1, full insert sequence.
AK039257 - Mus musculus adult male spinal cord cDNA, RIKEN full-length enriched library, clone:A330008J08 product:hypothetical ARM repeat structure containing protein, full insert sequence.
AK036944 - Mus musculus adult female vagina cDNA, RIKEN full-length enriched library, clone:9930028M04 product:similar to ADAPTER-RELATED PROTEIN COMPLEX 4 EPSILON 1 SUBUNIT (EPSILON SUBUNIT OF AP-4) (AP-4 ADAPTER COMPLEX EPSILON SUBUNIT) [Homo sapiens], full insert sequence.
AK144636 - Mus musculus lung RCB-0558 LLC cDNA, RIKEN full-length enriched library, clone:G730015L18 product:adaptor-related protein complex AP-4, epsilon 1, full insert sequence.
BC152829 - Synthetic construct Mus musculus clone IMAGE:100016095, MGC:184379 adaptor-related protein complex AP-4, epsilon 1 (Ap4e1) mRNA, encodes complete protein.
BC042530 - Mus musculus adaptor-related protein complex AP-4, epsilon 1, mRNA (cDNA clone IMAGE:4945718), partial cds.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu04142 - Lysosome

Reactome (by CSHL, EBI, and GO)

Protein Q80V94 (Reactome details) participates in the following event(s):

R-MMU-421833 Vamp And trans-Golgi Network AP-1 Binding Coupled With Cargo Capture
R-MMU-5229132 AP4 binds APP
R-MMU-421835 trans-Golgi Network Vesicle Scission
R-MMU-5229111 AP4 transports APP from trans-Golgi network to endosome lumen
R-MMU-432722 Golgi Associated Vesicle Biogenesis
R-MMU-432720 Lysosome Vesicle Biogenesis
R-MMU-421837 Clathrin derived vesicle budding
R-MMU-199992 trans-Golgi Network Vesicle Budding
R-MMU-199991 Membrane Trafficking
R-MMU-5653656 Vesicle-mediated transport

-  Other Names for This Gene
  Alternate Gene Symbols: A2ASB4, AP4E1_MOUSE, NM_175550, Q80V94, uc008men.1, uc008men.2
UCSC ID: uc008men.2
RefSeq Accession: NM_175550
Protein: Q80V94 (aka AP4E1_MOUSE)
CCDS: CCDS38231.1

-  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.