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

Gene ID: 241547, updated on 4-Jan-2025

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, Jan 2025]
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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See Harbi1 in Genome Data Viewer
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 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 IEA
Inferred from Electronic Annotation
more info
  
located_in centriolar satellite ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol 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 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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