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Clhc1 clathrin heavy chain linker domain containing 1 [ Mus musculus (house mouse) ]

Gene ID: 73324, updated on 5-Mar-2024

Summary

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Official Symbol
Clhc1provided by MGI
Official Full Name
clathrin heavy chain linker domain containing 1provided by MGI
Primary source
MGI:MGI:1920574
See related
Ensembl:ENSMUSG00000020461 AllianceGenome:MGI:1920574
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
1700034F02Rik
Summary
Orthologous to human CLHC1 (clathrin heavy chain linker domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in testis adult (RPKM 3.7) and placenta adult (RPKM 0.1) See more
Orthologs
human all
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Genomic context

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See Clhc1 in Genome Data Viewer
Location:
11 A3.3; 11 16.79 cM
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (29497950..29528360)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (29547950..29578360)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E3936 Neighboring gene prolyl-tRNA synthetase domain containing 1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:29426294-29426403 Neighboring gene mitochondrial translational initiation factor 2 Neighboring gene STARR-seq mESC enhancer starr_29024 Neighboring gene ribosomal protein S27A Neighboring gene 60S ribosomal protein L7-like Neighboring gene STARR-seq mESC enhancer starr_29025 Neighboring gene ribosomal protein S2 pseudogene Neighboring gene predicted gene 12092 Neighboring gene predicted gene, 53675 Neighboring gene STARR-seq mESC enhancer starr_29028

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. EUCOMM--the European conditional mouse mutagenesis program. Friedel RH, et al. Brief Funct Genomic Proteomic, 2007 Sep. PMID 17967808
  2. A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome. Hansen J, et al. Proc Natl Acad Sci U S A, 2003 Aug 19. PMID 12904583, Free PMC Article
  3. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article
  4. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
  5. Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 2003 Nov 25. PMID 14610273, Free PMC Article

See all (15) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

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

General gene information

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Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
  

General protein information

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Preferred Names
clathrin heavy chain linker domain-containing protein 1

NCBI Reference Sequences (RefSeq)

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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_001163521.1 → NP_001156993.1  clathrin heavy chain linker domain-containing protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001156993.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site, compared to variant 1. The resulting isoform (2) lacks an internal 11-aa segment, compared to isoform 1.
    Source sequence(s)
    AK006591, BC144828, BX284634
    Consensus CDS
    CCDS83787.1
    UniProtKB/TrEMBL
    B7ZMV8
    Related
    ENSMUSP00000147007.2, ENSMUST00000208530.2
    Conserved Domains (2) summary
    pfam13838
    Location:297 → 354
    Clathrin_H_link; Clathrin-H-link
    pfam15739
    Location:30 → 134
    TSNAXIP1_N; Translin-associated factor X-interacting N-terminus

  2. NM_028504.1 → NP_082780.1  clathrin heavy chain linker domain-containing protein 1 isoform 1

    See identical proteins and their annotated locations for NP_082780.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer variant and encodes the longer isoform (1).
    Source sequence(s)
    AK006591, BX284634
    Consensus CDS
    CCDS48763.1
    UniProtKB/Swiss-Prot
    B2RQ04, Q5M6W3, Q9D9Q4
    Related
    ENSMUSP00000020753.4, ENSMUST00000020753.4
    Conserved Domains (2) summary
    pfam13838
    Location:308 → 365
    Clathrin_H_link; Clathrin-H-link
    pfam15739
    Location:30 → 145
    TSNAXIP1_N; Translin-associated factor X-interacting N-terminus

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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
    29497950..29528360
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006514818.3 → XP_006514881.1  clathrin heavy chain linker domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006514881.1

    UniProtKB/Swiss-Prot
    B2RQ04, Q5M6W3, Q9D9Q4
    Conserved Domains (2) summary
    pfam13838
    Location:308 → 365
    Clathrin_H_link; Clathrin-H-link
    pfam15739
    Location:30 → 145
    TSNAXIP1_N; Translin-associated factor X-interacting N-terminus

  2. XM_006514819.3 → XP_006514882.1  clathrin heavy chain linker domain-containing protein 1 isoform X2

    See identical proteins and their annotated locations for XP_006514882.1

    UniProtKB/TrEMBL
    B7ZMV8
    Conserved Domains (2) summary
    pfam13838
    Location:297 → 354
    Clathrin_H_link; Clathrin-H-link
    pfam15739
    Location:30 → 134
    TSNAXIP1_N; Translin-associated factor X-interacting N-terminus

  3. XM_030246374.1 → XP_030102234.1  clathrin heavy chain linker domain-containing protein 1 isoform X3

    Conserved Domains (1) summary
    pfam13838
    Location:157 → 214
    Clathrin_H_link; Clathrin-H-link

RNA

  1. XR_001780065.3 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5M6W3.1 GenPept UniProtKB/Swiss-Prot:Q5M6W3

Gene LinkOut

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