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    Hdgfl2 HDGF like 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 171073, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Hdgfl2provided by RGD
    Official Full Name
    HDGF like 2provided by RGD
    Primary source
    RGD:621013
    See related
    EnsemblRapid:ENSRNOG00000049142 AllianceGenome:RGD:621013
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Hdgf2; Hdgfrp2
    Summary
    Predicted to enable H3K27me3 modified histone binding activity; H3K9me3 modified histone binding activity; and histone reader activity. Predicted to be involved in several processes, including DNA repair-dependent chromatin remodeling; positive regulation of double-strand break repair via homologous recombination; and skeletal muscle tissue regeneration. Located in cytoplasm and nucleus. Orthologous to human HDGFL2 (HDGF like 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 144.0), Brain (RPKM 133.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Hdgfl2 in Genome Data Viewer
    Location:
    9q11
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (996687..1016352)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (909581..929195)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (10972342..10991938, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene chromatin assembly factor 1 subunit A Neighboring gene UBX domain protein 6 Neighboring gene perilipin 4 Neighboring gene perilipin 5 Neighboring gene leucine-rich alpha-2-glycoprotein 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Hepatoma-derived growth factor-2 is highly expressed during development and in spinal cord injury. Zhuang Z, et al. Mol Med Rep, 2015 Oct. PMID 26252862
    2. Expression of hepatoma-derived growth factor family members in the adult central nervous system. El-Tahir HM, et al. BMC Neurosci, 2006 Jan 23. PMID 16430771, Free PMC Article
    3. HDGF-related protein-2 (HRP-2) acts as an oncogene to promote cell growth in hepatocellular carcinoma. Gao K, et al. Biochem Biophys Res Commun, 2015 Mar 20. PMID 25689719
    4. Interaction of HRP-2 isoforms with HDGF: chromatin binding of a specific heteromer. Thakar K, et al. FEBS J, 2012 Mar. PMID 22212508
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. HDGF-2 expression was significantly upregulated in the embryonic spinal cord and injured spinal cord.
      Title: Hepatoma-derived growth factor-2 is highly expressed during development and in spinal cord injury.
    2. HRP-2 was strongly expressed in neurons, astrocytes and oligodendrocytes in the thalamus, prefrontal and parietal cortex, neurohypophysis, and the cerebellum.
      Title: Expression of hepatoma-derived growth factor family members in the adult central nervous system.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC105333

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables H3K27me3 modified histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables H3K27me3 modified histone binding IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    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 histone reader activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables methylated histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 DNA repair-dependent chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in muscle cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 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 IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in skeletal muscle tissue regeneration ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    hepatoma-derived growth factor-related protein 2
    Names
    HDGF-3
    HRP-2
    hepatoma-derived growth factor 3

    NCBI Reference Sequences (RefSeq)

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    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_133548.1 → NP_598232.1  hepatoma-derived growth factor-related protein 2

      See identical proteins and their annotated locations for NP_598232.1

      Status: PROVISIONAL

      Source sequence(s)
      AF355102
      UniProtKB/Swiss-Prot
      Q5PPH2, Q68G63, Q925G1
      UniProtKB/TrEMBL
      A6KR02
      Conserved Domains (2) summary
      cd05834
      Location:3 → 87
      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:468 → 552
      LEDGF; Lens epithelium-derived growth factor (LEDGF)

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086027.1 Reference GRCr8

      Range
      996687..1016352
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006244289.5 → XP_006244351.1  hepatoma-derived growth factor-related protein 2 isoform X1

      UniProtKB/Swiss-Prot
      Q5PPH2, Q68G63, Q925G1
      UniProtKB/TrEMBL
      A0A8L2QVL5, A6KR02
      Conserved Domains (2) summary
      cd05834
      Location:3 → 87
      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:477 → 561
      LEDGF; Lens epithelium-derived growth factor (LEDGF)

    2. XM_006244290.5 → XP_006244352.1  hepatoma-derived growth factor-related protein 2 isoform X2

      UniProtKB/Swiss-Prot
      Q5PPH2, Q68G63, Q925G1
      UniProtKB/TrEMBL
      A6KR02
      Conserved Domains (2) summary
      cd05834
      Location:3 → 87
      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:477 → 561
      LEDGF; Lens epithelium-derived growth factor (LEDGF)

    3. XM_006244291.5 → XP_006244353.1  hepatoma-derived growth factor-related protein 2 isoform X3

      See identical proteins and their annotated locations for XP_006244353.1

      UniProtKB/Swiss-Prot
      Q5PPH2, Q68G63, Q925G1
      UniProtKB/TrEMBL
      A6KR02
      Related
      ENSRNOT00000081441.3
      Conserved Domains (2) summary
      cd05834
      Location:3 → 87
      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:468 → 552
      LEDGF; Lens epithelium-derived growth factor (LEDGF)

    4. XM_039082995.2 → XP_038938923.1  hepatoma-derived growth factor-related protein 2 isoform X7

      UniProtKB/TrEMBL
      A6KR05
      Conserved Domains (1) summary
      cd05834
      Location:3 → 87
      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, ...

    5. XM_063266617.1 → XP_063122687.1  hepatoma-derived growth factor-related protein 2 isoform X4

    6. XM_063266619.1 → XP_063122689.1  hepatoma-derived growth factor-related protein 2 isoform X6

    7. XM_063266618.1 → XP_063122688.1  hepatoma-derived growth factor-related protein 2 isoform X5

      UniProtKB/TrEMBL
      A6KR04
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q925G1.2 GenPept UniProtKB/Swiss-Prot:Q925G1

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