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Tigd2 tigger transposable element derived 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 100912924, updated on 30-Mar-2024

Summary

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Official Symbol
Tigd2provided by RGD
Official Full Name
tigger transposable element derived 2provided by RGD
Primary source
RGD:1559612
See related
Ensembl:ENSRNOG00000038449 AllianceGenome:RGD:1559612
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1559612
Summary
Predicted to enable DNA binding activity. Predicted to be active in nucleus. Orthologous to human TIGD2 (tigger transposable element derived 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Spleen (RPKM 64.3), Thymus (RPKM 59.0) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Tigd2 in Genome Data Viewer
Location:
4q24
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (89744516..89747608)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (88414366..88417458)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (89535418..89538535)

Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 13, member A Neighboring gene small nucleolar RNA SNORA17 Neighboring gene acyl-CoA binding domain containing 5, pseudogene 1 Neighboring gene sentrin-specific protease 6-like Neighboring gene SUMO specific peptidase 6, pseudogene 1 Neighboring gene GPRIN family member 3

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. Gene and alternative splicing annotation with AIR. Florea L, et al. Genome Res, 2005 Jan. PMID 15632090, Free PMC Article
  2. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
  3. 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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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 2

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_001305180.1 → NP_001292109.1  tigger transposable element-derived protein 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000004
    UniProtKB/TrEMBL
    F1LVC4
    Related
    ENSRNOP00000055379.3, ENSRNOT00000058581.4
    Conserved Domains (3) summary
    pfam03184
    Location:207 → 385
    DDE_1; DDE superfamily endonuclease
    pfam03221
    Location:76 → 135
    HTH_Tnp_Tc5; Tc5 transposase DNA-binding domain
    cl21459
    Location:4 → 52
    HTH; Helix-turn-helix domains

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_086022.1 Reference GRCr8

    Range
    89744516..89747608
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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.

Chemical Information
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Miscellaneous