Format

Send to:

Choose Destination
    • Showing Current items.

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

    Gene ID: 67300, updated on 5-Sep-2021

    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Cltc in Genome Data Viewer
    Location:
    11; 11 C
    Exon count:
    34
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (86585178..86648637, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (86694352..86757567, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 11 NC_000077.5 (86508155..86570994, complement)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene vacuole membrane protein 1 Neighboring gene predicted gene 11478 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 microRNA 12182

    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 Functions

    What's a GeneRIF?

    Variation

    Alleles

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

    Pathways from PubChem

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

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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
      ENSMUSP00000099475.5, ENSMUST00000103186.11
      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 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000077.7 Reference GRCm39 C57BL/6J

      Range
      86585178..86648637 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006533985.3XP_006534048.1  clathrin heavy chain 1 isoform X2

      Conserved Domains (6) summary
      smart00299
      Location:12751417
      CLH; Clathrin heavy chain repeat homology
      sd00006
      Location:11061132
      TPR; TPR repeat [structural motif]
      pfam01394
      Location:199235
      Clathrin_propel; Clathrin propeller repeat
      pfam00637
      Location:14281562
      Clathrin; Region in Clathrin and VPS
      pfam09268
      Location:332355
      Clathrin-link; Clathrin, heavy-chain linker
      pfam13838
      Location:357422
      Clathrin_H_link; Clathrin-H-link
    2. XM_006533983.3XP_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]
      pfam01394
      Location:199235
      Clathrin_propel; Clathrin propeller repeat
      pfam00637
      Location:14281562
      Clathrin; Region in Clathrin and VPS
      pfam09268
      Location:332355
      Clathrin-link; Clathrin, heavy-chain linker
      pfam13838
      Location:357422
      Clathrin_H_link; Clathrin-H-link
    Support Center