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    Cklf chemokine-like factor [ Mus musculus (house mouse) ]

    Gene ID: 75458, updated on 9-Dec-2024

    Summary

    Official Symbol
    Cklfprovided by MGI
    Official Full Name
    chemokine-like factorprovided by MGI
    Primary source
    MGI:MGI:1922708
    See related
    Ensembl:ENSMUSG00000054400 AllianceGenome:MGI:1922708
    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
    C32; CKLF1; CKLF3; CKLF4; CKLF5; Cklf2; Cklf6; UCK-1; HSPC224; 1700001C14Rik; 1810018M11Rik; A730028G07Rik
    Summary
    Predicted to enable chemokine activity. Predicted to be involved in leukocyte chemotaxis and secretion by cell. Predicted to be located in extracellular region. Predicted to be active in membrane. Orthologous to human CKLF (chemokine like factor). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in testis adult (RPKM 19.7), limb E14.5 (RPKM 4.0) and 15 other tissues See more
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    Genomic context

    See Cklf in Genome Data Viewer
    Location:
    8; 8 D3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (104977493..104992642)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (104250861..104266010)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene predicted gene 45750 Neighboring gene thymidine kinase 2, mitochondrial Neighboring gene STARR-positive B cell enhancer ABC_E9738 Neighboring gene STARR-seq mESC enhancer starr_22506 Neighboring gene CKLF-like MARVEL transmembrane domain containing 2A Neighboring gene CKLF-like MARVEL transmembrane domain containing 1

    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

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables chemokine activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables chemokine activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in leukocyte chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lymphocyte chemotaxis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in lymphocyte chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in macrophage chemotaxis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in macrophage chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neutrophil chemotaxis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in neutrophil chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in secretion by cell IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in secretion by cell ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in signal transduction IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in extracellular region ISO
    Inferred from Sequence Orthology
    more info
     
    located_in extracellular space IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    chemokine-like factor
    Names
    chemokine-like factor 2
    chemokine-like factor 4
    chemokine-like factor 6

    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_001037841.3NP_001032930.1  chemokine-like factor isoform 4

      See identical proteins and their annotated locations for NP_001032930.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an exon in the 3' coding region and contains an alternate terminal exon, compared to variant 1. This results in a protein (isoform 4) that is shorter and contains a distinct C-terminus.
      Source sequence(s)
      AC115718, AK032759
      Consensus CDS
      CCDS40449.1
      UniProtKB/TrEMBL
      A0A1D5RLG8
      Related
      ENSMUSP00000096064.5, ENSMUST00000098464.6
    2. NM_001286383.1NP_001273312.1  chemokine-like factor isoform 5

      See identical proteins and their annotated locations for NP_001273312.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) lacks an alternate in-frame exon in the 3' coding region. This results in a shorter protein (isoform 5).
      Source sequence(s)
      AC115718, AY046597, BE630757
      Consensus CDS
      CCDS85592.1
      UniProtKB/Swiss-Prot
      Q9DAS1
      Related
      ENSMUSP00000148697.2, ENSMUST00000211809.2
    3. NM_029295.3NP_083571.1  chemokine-like factor isoform 1

      See identical proteins and their annotated locations for NP_083571.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AC115718, AK046397, BE630757
      Consensus CDS
      CCDS40450.1
      UniProtKB/Swiss-Prot
      Q3T9V7, Q8BUC3, Q91ZA4, Q923S4, Q923S5, Q9DAS1
      Related
      ENSMUSP00000034342.6, ENSMUST00000034342.13
      Conserved Domains (1) summary
      cl04571
      Location:13127
      MARVEL; Membrane-associating domain

    RNA

    1. NR_104433.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) contains an alternate 3' exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC115718, AC121275, AK046397, BE630757

    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_000074.7 Reference GRCm39 C57BL/6J

      Range
      104977493..104992642
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030243826.2XP_030099686.1  chemokine-like factor isoform X1

    2. XM_030243827.2XP_030099687.1  chemokine-like factor isoform X2

      Related
      ENSMUSP00000148816.2, ENSMUST00000212410.2

    RNA

    1. XR_003947352.2 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001037840.1: Suppressed sequence

      Description
      NM_001037840.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    2. NM_029313.1: Suppressed sequence

      Description
      NM_029313.1: This RefSeq was permanently suppressed because it is primarily intronic sequence. The 3' end appears to be falsely primed off of an a-rich region of the genome.