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    Hdgfl2 HDGF like 2 [ Mus musculus (house mouse) ]

    Gene ID: 15193, updated on 9-Dec-2024

    Summary

    Official Symbol
    Hdgfl2provided by MGI
    Official Full Name
    HDGF like 2provided by MGI
    Primary source
    MGI:MGI:1194492
    See related
    Ensembl:ENSMUSG00000002833 AllianceGenome:MGI:1194492
    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
    HRP-2; Hdgfrp2
    Summary
    Predicted to enable H3K27me3 modified histone binding activity and H3K9me3 modified histone binding activity. Involved in muscle cell differentiation and skeletal muscle tissue regeneration. Located in nucleus. Is expressed in brain; dorsal root ganglion; intestine; and retina. Orthologous to human HDGFL2 (HDGF like 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 36.8), testis adult (RPKM 27.3) and 28 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Hdgfl2 in Genome Data Viewer
    Location:
    17 29.15 cM; 17 D
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (56386661..56407605)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (56079599..56100605)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:56160654-56160880 Neighboring gene MPN domain containing Neighboring gene SH3-domain GRB2-like 1 Neighboring gene STARR-positive B cell enhancer ABC_E3206 Neighboring gene STARR-positive B cell enhancer ABC_E9960 Neighboring gene chromatin assembly factor 1, subunit A Neighboring gene UBX domain protein 6 Neighboring gene STARR-positive B cell enhancer ABC_E100 Neighboring gene nuclear encoded tRNA glutamic acid 4 (anticodon CTC) Neighboring gene perilipin 4 Neighboring gene perilipin 5 Neighboring gene leucine-rich alpha-2-glycoprotein 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    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

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables H3K27me3 modified histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables H3K27me3 modified histone binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables H3K27me3 modified histone binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables H3K9me3 modified histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables H3K9me3 modified histone binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables H3K9me3 modified histone binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables histone reader activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables methylated histone binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables methylated histone binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in DNA recombination IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in DNA repair-dependent chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in muscle cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in muscle cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in muscle organ development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of cell growth ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of cell growth ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of double-strand break repair via homologous recombination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of double-strand break repair via homologous recombination ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in skeletal muscle tissue regeneration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    hepatoma-derived growth factor-related protein 2
    Names
    hepatoma-derived growth factor, related protein 2

    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_001304784.3NP_001291713.1  hepatoma-derived growth factor-related protein 2 isoform 1

      See identical proteins and their annotated locations for NP_001291713.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes isoform 1.
      Source sequence(s)
      CT009719
      Consensus CDS
      CCDS89122.1
      UniProtKB/Swiss-Prot
      Q3UMU9
      Related
      ENSMUSP00000153249.2, ENSMUST00000225843.2
      Conserved Domains (2) summary
      cd05834
      Location:387
      HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...
      pfam11467
      Location:477561
      LEDGF; Lens epithelium-derived growth factor (LEDGF)
    2. NM_001304785.3NP_001291714.1  hepatoma-derived growth factor-related protein 2 isoform 3

      See identical proteins and their annotated locations for NP_001291714.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses alternate in-frame splice sites in an internal exon and the 3' terminal exon, compared to variant 1. It encodes isoform 3, which is shorter than isoform 1.
      Source sequence(s)
      CT009719
      Consensus CDS
      CCDS89123.1
      UniProtKB/Swiss-Prot
      Q3UMU9
      Related
      ENSMUSP00000002911.10, ENSMUST00000002911.10
      Conserved Domains (2) summary
      cd05834
      Location:387
      HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...
      pfam11467
      Location:467551
      LEDGF; Lens epithelium-derived growth factor (LEDGF)
    3. NM_001331053.2NP_001317982.1  hepatoma-derived growth factor-related protein 2 isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. It encodes isoform 4, which is one amino acid shorter than isoform 1.
      Source sequence(s)
      CT009719
      UniProtKB/Swiss-Prot
      Q3UMU9
      Conserved Domains (2) summary
      cd05834
      Location:387
      HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...
      pfam11467
      Location:477561
      LEDGF; Lens epithelium-derived growth factor (LEDGF)
    4. NM_001424790.1NP_001411719.1  hepatoma-derived growth factor-related protein 2 isoform 5

      Status: VALIDATED

      Source sequence(s)
      CT009719
    5. NM_008233.5NP_032259.1  hepatoma-derived growth factor-related protein 2 isoform 2

      See identical proteins and their annotated locations for NP_032259.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the coding region, compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
      Source sequence(s)
      CT009719
      Consensus CDS
      CCDS28894.1
      UniProtKB/Swiss-Prot
      D6CHX5, O35540, Q3UIH6, Q3UMU9, Q99L92
      Related
      ENSMUSP00000152948.2, ENSMUST00000226053.2
      Conserved Domains (2) summary
      cd05834
      Location:387
      HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...
      pfam11467
      Location:468552
      LEDGF; Lens epithelium-derived growth factor (LEDGF)

    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_000083.7 Reference GRCm39 C57BL/6J

      Range
      56386661..56407605
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030249512.2XP_030105372.1  hepatoma-derived growth factor-related protein 2 isoform X3

      Conserved Domains (1) summary
      pfam11467
      Location:352437
      LEDGF; Lens epithelium-derived growth factor (LEDGF)
    2. XM_030249513.2XP_030105373.1  hepatoma-derived growth factor-related protein 2 isoform X5

      Conserved Domains (1) summary
      pfam11467
      Location:343428
      LEDGF; Lens epithelium-derived growth factor (LEDGF)
    3. XM_006523708.4XP_006523771.1  hepatoma-derived growth factor-related protein 2 isoform X2

      Conserved Domains (1) summary
      pfam11467
      Location:352437
      LEDGF; Lens epithelium-derived growth factor (LEDGF)
    4. XM_006523709.4XP_006523772.1  hepatoma-derived growth factor-related protein 2 isoform X4

      See identical proteins and their annotated locations for XP_006523772.1

      Conserved Domains (1) summary
      pfam11467
      Location:343428
      LEDGF; Lens epithelium-derived growth factor (LEDGF)