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    Cltc clathrin, heavy polypeptide (Hc) [ Mus musculus (house mouse) ]

    Gene ID: 67300, updated on 31-Jan-2019

    Summary

    Official Symbol
    Cltcprovided by MGI
    Official Full Name
    clathrin, heavy polypeptide (Hc)provided by MGI
    Primary source
    MGI:MGI:2388633
    See related
    Ensembl:ENSMUSG00000047126
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    CHC; R74732; 3110065L21Rik
    Expression
    Ubiquitous expression in placenta adult (RPKM 76.8), cerebellum adult (RPKM 54.2) and 28 other tissues See more
    Orthologs

    Genomic context

    See Cltc in Genome Data Viewer
    Location:
    11; 11 C
    Exon count:
    34
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 11 NC_000077.6 (86694610..86757742, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 11 NC_000077.5 (86508155..86570994, complement)

    Chromosome 11 - NC_000077.6Genomic Context describing neighboring genes Neighboring gene vacuole membrane protein 1 Neighboring gene 60S ribosomal protein L13a-like Neighboring gene peptidyl-tRNA hydrolase 2 Neighboring gene predicted gene, 42085 Neighboring gene DEAH (Asp-Glu-Ala-His) box polypeptide 40 Neighboring gene predicted gene, 33742 Neighboring gene predicted gene, 38942

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    Pathways from BioSystems

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC92975

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    ankyrin binding ISO
    Inferred from Sequence Orthology
    more info
     
    clathrin light chain binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    clathrin light chain binding ISO
    Inferred from Sequence Orthology
    more info
     
    disordered domain specific binding ISO
    Inferred from Sequence Orthology
    more info
     
    double-stranded RNA binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    heat shock protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    low-density lipoprotein particle receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    peptide binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein C-terminus binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein kinase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    structural molecule activity IEA
    Inferred from Electronic Annotation
    more info
     
    ubiquitin-specific protease binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    Golgi organization ISO
    Inferred from Sequence Orthology
    more info
     
    amyloid-beta clearance by transcytosis ISO
    Inferred from Sequence Orthology
    more info
     
    autophagy IEA
    Inferred from Electronic Annotation
    more info
     
    cell cycle IEA
    Inferred from Electronic Annotation
    more info
     
    cell division IEA
    Inferred from Electronic Annotation
    more info
     
    clathrin coat assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    clathrin coat assembly ISO
    Inferred from Sequence Orthology
    more info
     
    clathrin-dependent endocytosis ISO
    Inferred from Sequence Orthology
    more info
     
    intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    mitotic cell cycle IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    mitotic cell cycle ISO
    Inferred from Sequence Orthology
    more info
     
    mitotic spindle assembly ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of hyaluronan biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of protein localization to plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    receptor internalization ISO
    Inferred from Sequence Orthology
    more info
     
    receptor-mediated endocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    receptor-mediated endocytosis ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of mitotic spindle organization ISO
    Inferred from Sequence Orthology
    more info
     
    retrograde transport, endosome to Golgi ISO
    Inferred from Sequence Orthology
    more info
     
    synaptic vesicle endocytosis ISO
    Inferred from Sequence Orthology
    more info
     
    transferrin transport ISO
    Inferred from Sequence Orthology
    more info
     
    vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    Myb complex ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    T-tubule ISO
    Inferred from Sequence Orthology
    more info
     
    clathrin coat ISO
    Inferred from Sequence Orthology
    more info
     
    clathrin coat of coated pit IEA
    Inferred from Electronic Annotation
    more info
     
    clathrin coat of trans-Golgi network vesicle IEA
    Inferred from Electronic Annotation
    more info
     
    clathrin complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    clathrin complex ISO
    Inferred from Sequence Orthology
    more info
     
    clathrin-coated endocytic vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    clathrin-coated pit IEA
    Inferred from Electronic Annotation
    more info
     
    clathrin-coated vesicle ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    cytoplasmic vesicle IEA
    Inferred from Electronic Annotation
    more info
     
    cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
     
    endosome ISO
    Inferred from Sequence Orthology
    more info
     
    extrinsic component of synaptic vesicle membrane ISO
    Inferred from Sequence Orthology
    more info
     
    intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    lysosome ISO
    Inferred from Sequence Orthology
    more info
     
    membrane IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    membrane coat IDA
    Inferred from Direct Assay
    more info
    PubMed 
    mitochondrion HDA PubMed 
    mitotic spindle ISO
    Inferred from Sequence Orthology
    more info
     
    mitotic spindle microtubule ISO
    Inferred from Sequence Orthology
    more info
     
    myelin sheath HDA PubMed 
    photoreceptor ribbon synapse IDA
    Inferred from Direct Assay
    more info
    PubMed 
    presynaptic endocytic zone membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    sarcolemma ISO
    Inferred from Sequence Orthology
    more info
     
    spindle IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    spindle ISO
    Inferred from Sequence Orthology
    more info
     

    NCBI Reference Sequences (RefSeq)

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001003908.2NP_001003908.1  clathrin heavy chain 1 isoform 2

      See identical proteins and their annotated locations for NP_001003908.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 3' coding region, compared to variant 1. It encodes isoform 2, which lacks an internal segment and is shorter, compared to isoform 1.
      Source sequence(s)
      BB840649, BC079897, BP758029, CF745318, CJ103480
      Consensus CDS
      CCDS25204.1
      UniProtKB/Swiss-Prot
      Q68FD5
      Related
      ENSMUSP00000099475.4, ENSMUST00000103186.10
      Conserved Domains (6) summary
      smart00299
      Location:12741416
      CLH; Clathrin heavy chain repeat homology
      sd00006
      Location:11051131
      TPR; TPR repeat [structural motif]
      pfam01394
      Location:198234
      Clathrin_propel; Clathrin propeller repeat
      pfam00637
      Location:14271561
      Clathrin; Region in Clathrin and VPS
      pfam09268
      Location:331354
      Clathrin-link; Clathrin, heavy-chain linker
      pfam13838
      Location:356421
      Clathrin_H_link; Clathrin-H-link
    2. NM_001356393.1NP_001343322.1  clathrin heavy chain 1 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AL592222, BB840649, BC079897, BP758029, CF745318, CJ103480
      Conserved Domains (6) summary
      smart00299
      Location:12741416
      CLH; Clathrin heavy chain repeat homology
      sd00006
      Location:11051131
      TPR; TPR repeat [structural motif]
      pfam01394
      Location:198234
      Clathrin_propel; Clathrin propeller repeat
      pfam00637
      Location:14271561
      Clathrin; Region in Clathrin and VPS
      pfam09268
      Location:331354
      Clathrin-link; Clathrin, heavy-chain linker
      pfam13838
      Location:356421
      Clathrin_H_link; Clathrin-H-link

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000077.6 Reference GRCm38.p4 C57BL/6J

      Range
      86694610..86757742 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006533985.1XP_006534048.1  clathrin heavy chain 1 isoform X3

      Conserved Domains (6) summary
      smart00299
      Location:12751417
      CLH; Clathrin heavy chain repeat homology
      sd00006
      Location:11061132
      TPR; TPR repeat [structural motif]
      pfam00637
      Location:9841120
      Clathrin; Region in Clathrin and VPS
      pfam01394
      Location:199235
      Clathrin_propel; Clathrin propeller repeat
      pfam09268
      Location:332354
      Clathrin-link; Clathrin, heavy-chain linker
      pfam13838
      Location:365422
      Clathrin_H_link; Clathrin-H-link
    2. XM_006533983.1XP_006534046.1  clathrin heavy chain 1 isoform X1

      Conserved Domains (6) summary
      smart00299
      Location:12751417
      CLH; Clathrin heavy chain repeat homology
      sd00006
      Location:11061132
      TPR; TPR repeat [structural motif]
      pfam00637
      Location:9841120
      Clathrin; Region in Clathrin and VPS
      pfam01394
      Location:199235
      Clathrin_propel; Clathrin propeller repeat
      pfam09268
      Location:332354
      Clathrin-link; Clathrin, heavy-chain linker
      pfam13838
      Location:365422
      Clathrin_H_link; Clathrin-H-link
    3. XM_006533984.2XP_006534047.1  clathrin heavy chain 1 isoform X2

      Conserved Domains (6) summary
      smart00299
      Location:12741416
      CLH; Clathrin heavy chain repeat homology
      sd00006
      Location:11051131
      TPR; TPR repeat [structural motif]
      pfam01394
      Location:198234
      Clathrin_propel; Clathrin propeller repeat
      pfam00637
      Location:14271561
      Clathrin; Region in Clathrin and VPS
      pfam09268
      Location:331354
      Clathrin-link; Clathrin, heavy-chain linker
      pfam13838
      Location:356421
      Clathrin_H_link; Clathrin-H-link
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