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Gin1 gypsy retrotransposon integrase 1 [ Mus musculus (house mouse) ]

Gene ID: 252876, updated on 2-Nov-2024

Summary

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Official Symbol
Gin1provided by MGI
Official Full Name
gypsy retrotransposon integrase 1provided by MGI
Primary source
MGI:MGI:2182036
See related
Ensembl:ENSMUSG00000026333 AllianceGenome:MGI:2182036
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
Gin-1; Zh2c2; 4930429M06Rik; 8430411H10Rik
Summary
Predicted to enable nucleic acid binding activity. Predicted to be involved in DNA integration. Orthologous to human GIN1 (gypsy retrotransposon integrase 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in liver E14 (RPKM 2.6), liver E14.5 (RPKM 1.9) and 27 other tissues See more
Orthologs
human all
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Genomic context

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See Gin1 in Genome Data Viewer
Location:
1 D; 1 47.76 cM
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (97697894..97721435)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (97770172..97793710)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_01776 Neighboring gene predicted gene 7135 Neighboring gene STARR-seq mESC enhancer starr_01777 Neighboring gene STARR-seq mESC enhancer starr_01778 Neighboring gene VISTA enhancer mm1317 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:99476944-99477212 Neighboring gene STARR-positive B cell enhancer ABC_E3293 Neighboring gene macrophage immunometabolism regulator Neighboring gene diphosphoinositol pentakisphosphate kinase 2 Neighboring gene STARR-seq mESC enhancer starr_01779 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:99666627-99666810 Neighboring gene STARR-seq mESC enhancer starr_01781 Neighboring gene peptidylglycine alpha-amidating monooxygenase Neighboring gene predicted gene, 31771 Neighboring gene basic transcription factor 3, pseudogene 1

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 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. A mammalian gene evolved from the integrase domain of an LTR retrotransposon. Lloréns C, et al. Mol Biol Evol, 2001 Aug. PMID 11470852
  2. A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome. Hansen J, et al. Proc Natl Acad Sci U S A, 2003 Aug 19. PMID 12904583, Free PMC Article
  3. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article
  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. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article

See all (14) 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)
  • Endonuclease-mediated (1) 

General gene information

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Markers

Homology

Clone Names

  • MGC29171

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in DNA integration IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
gypsy retrotransposon integrase-like protein 1
Names
zinc finger H2C2 domain-containing protein
zinc finger, H2C2 domain containing

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_001310773.1 → NP_001297702.1  gypsy retrotransposon integrase-like protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001297702.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC102191, AK014287, AK169361
    Consensus CDS
    CCDS78662.1
    UniProtKB/Swiss-Prot
    Q8K259
    Related
    ENSMUSP00000027571.7, ENSMUST00000027571.13

  2. NM_026250.3 → NP_080526.2  gypsy retrotransposon integrase-like protein 1 isoform 1

    See identical proteins and their annotated locations for NP_080526.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC102191, AK014287, AK169361
    Consensus CDS
    CCDS35679.1
    UniProtKB/Swiss-Prot
    Q3TEY8, Q3V2V3, Q8C3X6, Q8K259, Q9CXB6, Q9D5K2
    Related
    ENSMUSP00000108464.4, ENSMUST00000112844.10
    Conserved Domains (1) summary
    cl07828
    Location:85 → 119
    zf-H2C2; His(2)-Cys(2) zinc finger

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_000067.7 Reference GRCm39 C57BL/6J

    Range
    97697894..97721435
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006529614.5 → XP_006529677.1  gypsy retrotransposon integrase-like protein 1 isoform X1

    Conserved Domains (1) summary
    cl21549
    Location:80 → 132
    rve; Integrase core domain

  2. XM_006529616.4 → XP_006529679.1  gypsy retrotransposon integrase-like protein 1 isoform X3

  3. XM_030254329.1 → XP_030110189.1  gypsy retrotransposon integrase-like protein 1 isoform X2

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8K259.2 GenPept UniProtKB/Swiss-Prot:Q8K259

Gene LinkOut

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