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    Harbi1 harbinger transposase derived 1 [ Mus musculus (house mouse) ]

    Gene ID: 241547, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Harbi1provided by MGI
    Official Full Name
    harbinger transposase derived 1provided by MGI
    Primary source
    MGI:MGI:2443194
    See related
    Ensembl:ENSMUSG00000027243 AllianceGenome:MGI:2443194
    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
    D230010M03Rik
    Summary
    Predicted to enable metal ion binding activity and nuclease activity. Predicted to be located in centriolar satellite; cytosol; and plasma membrane. Orthologous to human HARBI1 (harbinger transposase derived 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in limb E14.5 (RPKM 1.7), CNS E11.5 (RPKM 1.5) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    2 E1; 2 50.63 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (91541197..91554016)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (91710852..91723671)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E1007 Neighboring gene Rho GTPase activating protein 1 Neighboring gene STARR-seq mESC enhancer starr_05121 Neighboring gene autophagy related 13 Neighboring gene STARR-seq mESC enhancer starr_05122 Neighboring gene dyskeratosis congenita 1, dyskerin homolog pseudogene Neighboring gene autophagy/beclin 1 regulator 1 Neighboring gene STARR-seq mESC enhancer starr_05123 Neighboring gene cholinergic receptor, muscarinic 4 Neighboring gene midkine

    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. Harbinger transposons and an ancient HARBI1 gene derived from a transposase. Kapitonov VV, et al. DNA Cell Biol, 2004 May. PMID 15169610
    2. Tagging genes with cassette-exchange sites. Cobellis G, et al. Nucleic Acids Res, 2005 Mar 1. PMID 15741177, Free PMC Article
    3. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
    4. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, 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)
    • Targeted (1) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    enables nuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    located_in centriolar satellite ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    putative nuclease HARBI1
    Names
    harbinger transposase-derived nuclease
    NP_001343447.1
    NP_001343448.1
    NP_848839.2
    XP_006499534.1

    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_001356518.1 → NP_001343447.1  putative nuclease HARBI1 isoform a

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same isoform (a).
      Source sequence(s)
      AL714023
      Consensus CDS
      CCDS50642.1
      UniProtKB/Swiss-Prot
      A2AH19, B7ZCF8, Q8BNA8, Q8BNT1, Q8BR93, Q8C9N1
      Conserved Domains (1) summary
      pfam13359
      Location:149 → 300
      DDE_Tnp_4; DDE superfamily endonuclease

    2. NM_001356519.1 → NP_001343448.1  putative nuclease HARBI1 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (b) has a shorter and distinct C-terminus compared to isoform a. The 5' UTR structure of this variant has not been determined.
      Source sequence(s)
      AK041747, AK147045
      Consensus CDS
      CCDS89518.1
      Related
      ENSMUSP00000106954.2, ENSMUST00000111322.2
      Conserved Domains (1) summary
      cl21562
      Location:149 → 224
      DDE_Tnp_4; DDE superfamily endonuclease

    3. NM_178724.5 → NP_848839.2  putative nuclease HARBI1 isoform a

      See identical proteins and their annotated locations for NP_848839.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1 and 2 both encode the same isoform (a).
      Source sequence(s)
      BC094315, BY131507
      Consensus CDS
      CCDS50642.1
      UniProtKB/Swiss-Prot
      A2AH19, B7ZCF8, Q8BNA8, Q8BNT1, Q8BR93, Q8C9N1
      Related
      ENSMUSP00000088098.6, ENSMUST00000090608.6
      Conserved Domains (1) summary
      pfam13359
      Location:149 → 300
      DDE_Tnp_4; DDE superfamily endonuclease

    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_000068.8 Reference GRCm39 C57BL/6J

      Range
      91541197..91554016
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006499471.4 → XP_006499534.1  putative nuclease HARBI1 isoform X1

      See identical proteins and their annotated locations for XP_006499534.1

      UniProtKB/Swiss-Prot
      A2AH19, B7ZCF8, Q8BNA8, Q8BNT1, Q8BR93, Q8C9N1
      Conserved Domains (1) summary
      pfam13359
      Location:149 → 300
      DDE_Tnp_4; DDE superfamily endonuclease

    RNA

    1. XR_004940334.1 RNA Sequence

    2. XR_004940333.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BR93.1 GenPept UniProtKB/Swiss-Prot:Q8BR93

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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