U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

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

Gene ID: 73324, updated on 26-Sep-2022

Summary

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
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See Clhc1 in Genome Data Viewer
Location:
11; 11 A3.3
Exon count:
13
Annotation release Status Assembly Chr Location
109 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 prolyl-tRNA synthetase domain containing 1 Neighboring gene mitochondrial translational initiation factor 2 Neighboring gene ribosomal protein S27A Neighboring gene 60S ribosomal protein L7-like Neighboring gene ribosomal protein S2 pseudogene Neighboring gene predicted gene 12092 Neighboring gene predicted gene, 53675

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

Variation

Alleles

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

General gene information

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

Preferred Names
clathrin heavy chain linker domain-containing protein 1

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_001163521.1NP_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/Swiss-Prot
    Q5M6W3
    UniProtKB/TrEMBL
    B7ZMV8
    Related
    ENSMUSP00000147007.2, ENSMUST00000208530.2
    Conserved Domains (2) summary
    pfam13838
    Location:297354
    Clathrin_H_link; Clathrin-H-link
    pfam15739
    Location:30134
    TSNAXIP1_N; Translin-associated factor X-interacting N-terminus
  2. NM_028504.1NP_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
    Q5M6W3, Q9D9Q4
    Related
    ENSMUSP00000020753.4, ENSMUST00000020753.4
    Conserved Domains (2) summary
    pfam13838
    Location:308365
    Clathrin_H_link; Clathrin-H-link
    pfam15739
    Location:30145
    TSNAXIP1_N; Translin-associated factor X-interacting N-terminus

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

mRNA and Protein(s)

  1. XM_006514818.3XP_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
    Q5M6W3, Q9D9Q4
    Conserved Domains (2) summary
    pfam13838
    Location:308365
    Clathrin_H_link; Clathrin-H-link
    pfam15739
    Location:30145
    TSNAXIP1_N; Translin-associated factor X-interacting N-terminus
  2. XM_006514819.3XP_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:297354
    Clathrin_H_link; Clathrin-H-link
    pfam15739
    Location:30134
    TSNAXIP1_N; Translin-associated factor X-interacting N-terminus
  3. XM_030246374.1XP_030102234.1  clathrin heavy chain linker domain-containing protein 1 isoform X3

    Conserved Domains (1) summary
    pfam13838
    Location:157214
    Clathrin_H_link; Clathrin-H-link

RNA

  1. XR_001780065.3 RNA Sequence