U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    CLTC clathrin heavy chain [ Sus scrofa (pig) ]

    Gene ID: 100271929, updated on 17-Aug-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    CLTCprovided by VGNC
    Official Full Name
    clathrin heavy chainprovided by VGNC
    Primary source
    VGNC:VGNC:86789
    See related
    Ensembl:ENSSSCG00000022659
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Sus scrofa
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
    Expression
    Ubiquitous expression in kidney (RPKM 71.1), lung (RPKM 42.7) and 8 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See CLTC in Genome Data Viewer
    Location:
    chromosome: 12
    Exon count:
    34
    Annotation release Status Assembly Chr Location
    106 current Sscrofa11.1 (GCF_000003025.6) 12 NC_010454.4 (35848894..35926028)
    105 previous assembly Sscrofa10.2 (GCF_000003025.5) 12 NC_010454.3 (37145840..37192985) , (36559496..36602612, complement)

    Chromosome 12 - NC_010454.4Genomic Context describing neighboring genes Neighboring gene yippee like 2 Neighboring gene DEAH-box helicase 40 Neighboring gene peptidyl-tRNA hydrolase 2 Neighboring gene microRNA mir-21 Neighboring gene tubulin delta 1

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Transcriptome data used for gene annotation Transcriptome data used for gene annotation
    • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
    • BioProject: PRJNA311523
    • Publication: PMID 27646534
    • Analysis date: Thu Dec 14 17:10:49 2017

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Japanese encephalitis virus infects porcine kidney epithelial PK15 cells via clathrin- and cholesterol-dependent endocytosis. Yang S, et al. Virol J, 2013 Aug 12. PMID 23937769, Free PMC Article
    2. Clathrin is essential for meiotic spindle function in oocytes. Hölzenspies JJ, et al. Reproduction, 2010 Aug. PMID 20522479
    3. Cryo-EM of multiple cage architectures reveals a universal mode of clathrin self-assembly. Morris KL, et al. Nat Struct Mol Biol, 2019 Oct. PMID 31582853, Free PMC Article
    4. PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10 147 porcine full-length cDNA sequences. Uenishi H, et al. Nucleic Acids Res, 2007 Jan. PMID 17145712, Free PMC Article
    5. PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries. Uenishi H, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681463, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. This study reports cryo-EM maps for five different clathrin cage architectures. Fitting structural models to three of these maps shows that their assembly requires only a limited range of triskelion leg conformations, yet inherent flexibility is required to maintain contacts.
      Title: Cryo-EM of multiple cage architectures reveals a universal mode of clathrin self-assembly.
    2. Taken together, these results demonstrate that Japanese encephalitis virus enters porcine kidney epithelial PK15 cells through cholesterol- and clathrin-mediated endocytosis.
      Title: Japanese encephalitis virus infects porcine kidney epithelial PK15 cells via clathrin- and cholesterol-dependent endocytosis.
    3. Clathrin plays a crucial role in meiotic spindle function in maturing oocytes, possibly through spindle stabilization
      Title: Clathrin is essential for meiotic spindle function in oocytes.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables clathrin light chain binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables structural molecule activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in clathrin coat assembly IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in mitotic cell cycle IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in receptor-mediated endocytosis IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of clathrin coat of coated pit IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of clathrin coat of trans-Golgi network vesicle IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of clathrin complex IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in clathrin-coated endocytic vesicle IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in extracellular exosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in spindle IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    clathrin heavy chain 1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001146127.1 → NP_001139599.1  clathrin heavy chain 1

      See identical proteins and their annotated locations for NP_001139599.1

      Status: PROVISIONAL

      Source sequence(s)
      FM210346
      UniProtKB/TrEMBL
      A0A8D1C1K6, A0A8D1ZIN9, C0MHR2, K7GQL8
      Related
      ENSSSCP00000030190.4, ENSSSCT00000033168.4
      Conserved Domains (6) summary
      smart00299
      Location:1274 → 1416
      CLH; Clathrin heavy chain repeat homology
      sd00006
      Location:1105 → 1131
      TPR; TPR repeat [structural motif]
      pfam00637
      Location:979 → 1119
      Clathrin; Region in Clathrin and VPS
      pfam01394
      Location:198 → 234
      Clathrin_propel; Clathrin propeller repeat
      pfam09268
      Location:331 → 354
      Clathrin-link; Clathrin, heavy-chain linker
      pfam13838
      Location:356 → 421
      Clathrin_H_link; Clathrin-H-link

    RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...Open this link in a new tab

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

    Reference Sscrofa11.1 Primary Assembly

    Genomic

    1. NC_010454.4 Reference Sscrofa11.1 Primary Assembly

      Range
      35848894..35926028
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021066047.1 → XP_020921706.1  clathrin heavy chain 1 isoform X1

      UniProtKB/TrEMBL
      A0A8D0VVM5, A0A8D1C1K6
      Conserved Domains (6) summary
      smart00299
      Location:1274 → 1416
      CLH; Clathrin heavy chain repeat homology
      sd00006
      Location:1105 → 1131
      TPR; TPR repeat [structural motif]
      pfam00637
      Location:979 → 1119
      Clathrin; Region in Clathrin and VPS
      pfam01394
      Location:198 → 234
      Clathrin_propel; Clathrin propeller repeat
      pfam09268
      Location:331 → 354
      Clathrin-link; Clathrin, heavy-chain linker
      pfam13838
      Location:356 → 421
      Clathrin_H_link; Clathrin-H-link

    2. XM_021066049.1 → XP_020921708.1  clathrin heavy chain 1 isoform X3

      UniProtKB/TrEMBL
      A0A5K1U8P1, A0A8D0S1A1, A0A8D1AMQ8
      Related
      ENSSSCP00000023127.4, ENSSSCT00000027653.4
      Conserved Domains (6) summary
      smart00299
      Location:1274 → 1416
      CLH; Clathrin heavy chain repeat homology
      sd00006
      Location:1105 → 1131
      TPR; TPR repeat [structural motif]
      pfam01394
      Location:198 → 234
      Clathrin_propel; Clathrin propeller repeat
      pfam00637
      Location:1427 → 1561
      Clathrin; Region in Clathrin and VPS
      pfam09268
      Location:331 → 354
      Clathrin-link; Clathrin, heavy-chain linker
      pfam13838
      Location:356 → 421
      Clathrin_H_link; Clathrin-H-link

    3. XM_021066048.1 → XP_020921707.1  clathrin heavy chain 1 isoform X2

      UniProtKB/TrEMBL
      A0A5K1U8P1, A0A8D1AMQ8, A0A8D1RV39
      Conserved Domains (6) summary
      smart00299
      Location:1274 → 1416
      CLH; Clathrin heavy chain repeat homology
      sd00006
      Location:1105 → 1131
      TPR; TPR repeat [structural motif]
      pfam01394
      Location:198 → 234
      Clathrin_propel; Clathrin propeller repeat
      pfam00637
      Location:1427 → 1561
      Clathrin; Region in Clathrin and VPS
      pfam09268
      Location:331 → 354
      Clathrin-link; Clathrin, heavy-chain linker
      pfam13838
      Location:356 → 421
      Clathrin_H_link; Clathrin-H-link
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.