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    Tigd3 tigger transposable element derived 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 309174, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Tigd3provided by RGD
    Official Full Name
    tigger transposable element derived 3provided by RGD
    Primary source
    RGD:1305393
    See related
    EnsemblRapid:ENSRNOG00000023318 AllianceGenome:RGD:1305393
    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
    Summary
    Predicted to enable DNA binding activity. Predicted to be active in nucleus. Orthologous to human TIGD3 (tigger transposable element derived 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 17.7), Thymus (RPKM 14.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tigd3 in Genome Data Viewer
    Location:
    1q43
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (212607772..212612683, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (203178456..203182775, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (221248546..221252284, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene FERM domain containing 8 Neighboring gene solute carrier family 25, member 45 Neighboring gene U2 spliceosomal RNA Neighboring gene double PHD fingers 2 Neighboring gene CDC42 effector protein 2

    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. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    tigger transposable element-derived protein 3
    Names
    tigger transposable element derived 3 homolog

    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_001107573.1 → NP_001101043.1  tigger transposable element-derived protein 3

      See identical proteins and their annotated locations for NP_001101043.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473953
      UniProtKB/TrEMBL
      A6HZA9, D3ZS21
      Conserved Domains (3) summary
      pfam03221
      Location:76 → 133
      HTH_Tnp_Tc5; Tc5 transposase DNA-binding domain
      cl21459
      Location:6 → 57
      HTH; Helix-turn-helix domains
      cl21549
      Location:193 → 360
      rve; Integrase core domain

    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_086019.1 Reference GRCr8

      Range
      212607772..212612683 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006230805.5 → XP_006230867.1  tigger transposable element-derived protein 3 isoform X1

      See identical proteins and their annotated locations for XP_006230867.1

      UniProtKB/TrEMBL
      A6HZA9, D3ZS21
      Related
      ENSRNOP00000099633.1, ENSRNOT00000122397.1
      Conserved Domains (3) summary
      pfam03221
      Location:76 → 133
      HTH_Tnp_Tc5; Tc5 transposase DNA-binding domain
      cl21459
      Location:6 → 57
      HTH; Helix-turn-helix domains
      cl21549
      Location:193 → 360
      rve; Integrase core domain
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

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