U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

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

Gene ID: 67300, updated on 8-Jan-2023

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 AllianceGenome:MGI:2388633
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; 3110065L21Rik
Summary
Enables protein kinase binding activity. Predicted to be involved in several processes, including amyloid-beta clearance by transcytosis; endocytosis; and negative regulation of hyaluronan biosynthetic process. Predicted to act upstream of or within mitotic spindle assembly. Located in clathrin-coated pit and photoreceptor ribbon synapse. Part of membrane coat. Is active in presynaptic endocytic zone membrane. Is expressed in 8-cell stage embryo; brain; placenta; and unsegmented mesenchyme. Human ortholog(s) of this gene implicated in autosomal dominant mental retardation 56. Orthologous to human CLTC (clathrin heavy chain). [provided by Alliance of Genome Resources, Apr 2022]
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)

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 (4) 

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 binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein kinase binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein serine/threonine kinase binding ISO
Inferred from Sequence Orthology
more info
 
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
 
is_active_in extrinsic component of synaptic vesicle membrane 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 
is_active_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 
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
    UniProtKB/TrEMBL
    A0A6P7RX46, A0A8C6GSH1
    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
    UniProtKB/TrEMBL
    A0A6P7RFC6, A0A8C6MTJ2
    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

    UniProtKB/TrEMBL
    A0A6P7RK61
    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

    UniProtKB/TrEMBL
    A0A6P7RGQ9
    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