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    Eif2d eukaryotic translation initiation factor 2D [ Mus musculus (house mouse) ]

    Gene ID: 16865, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Eif2dprovided by MGI
    Official Full Name
    eukaryotic translation initiation factor 2Dprovided by MGI
    Primary source
    MGI:MGI:109342
    See related
    Ensembl:ENSMUSG00000026427 AllianceGenome:MGI:109342
    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
    Lgtn; D1Ertd5e
    Summary
    Predicted to enable translation initiation factor activity. Predicted to be involved in IRES-dependent viral translational initiation; formation of translation preinitiation complex; and ribosome disassembly. Predicted to be located in cytosol and nuclear body. Predicted to be part of cytosolic small ribosomal subunit. Orthologous to human EIF2D (eukaryotic translation initiation factor 2D). [provided by Alliance of Genome Resources, Nov 2024]
    Annotation information
    Note: The name of this locus was changed from ligatin to eukaryotic translation initiation factor 2D based on the gene characterization of the human ortholog reported in PMID:20566627. [18 Aug 2011]
    Expression
    Ubiquitous expression in thymus adult (RPKM 6.0), limb E14.5 (RPKM 4.1) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Eif2d in Genome Data Viewer
    Location:
    1 E4; 1 56.9 cM
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (131080903..131115396)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (131153172..131187659)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 51643 Neighboring gene STARR-seq mESC enhancer starr_02208 Neighboring gene dual-specificity tyrosine phosphorylation regulated kinase 3 Neighboring gene STARR-positive B cell enhancer ABC_E5795 Neighboring gene STARR-seq mESC enhancer starr_02210 Neighboring gene Ras association (RalGDS/AF-6) domain family member 5 Neighboring gene STARR-positive B cell enhancer ABC_E11692 Neighboring gene STARR-seq mESC enhancer starr_02214 Neighboring gene bystin-like pseudogene Neighboring gene predicted gene 28913 Neighboring gene inhibitor of kappaB kinase epsilon

    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. Assignment of the mouse ligatin gene (Lgtn) to chromosome 1F by in situ hybridization. Malnar-Dragojevic D, et al. Genomics, 1997 Feb 15. PMID 9070942
    2. Interactome of vertebrate GAF/ThPOK reveals its diverse functions in gene regulation and DNA repair. Srivastava A, et al. J Biosci, 2020. PMID 32098917
    3. ATG5 is required for B cell polarization and presentation of particulate antigens. Arbogast F, et al. Autophagy, 2019 Feb. PMID 30196744, Free PMC Article
    4. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
    5. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199

    See all (19) 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) 

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables translation initiation factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables translation initiation factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables translation initiation factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in IRES-dependent viral translational initiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in IRES-dependent viral translational initiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in formation of translation preinitiation complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in formation of translation preinitiation complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in formation of translation preinitiation complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ribosome disassembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ribosome disassembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of cytosolic small ribosomal subunit ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear body IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    eukaryotic translation initiation factor 2D
    Names
    ligatin

    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_001136070.2 → NP_001129542.1  eukaryotic translation initiation factor 2D isoform 1

      See identical proteins and their annotated locations for NP_001129542.1

      Status: VALIDATED

      Source sequence(s)
      AC109262
      Consensus CDS
      CCDS48354.1
      UniProtKB/Swiss-Prot
      Q3TDE0, Q3THV5, Q3TTP4, Q61211, Q8C491, Q8CBF1, Q8CC17, Q8R1I9, Q8R3M5
      Related
      ENSMUSP00000063894.8, ENSMUST00000068805.14
      Conserved Domains (4) summary
      cd11608
      Location:477 → 561
      eIF2D_C; C-terminal domain of eIF2D and related proteins
      cd11610
      Location:6 → 81
      eIF2D_N; N-terminal domain of eIF2D and related proteins
      COG2016
      Location:7 → 178
      Tma20; Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis]
      cl00607
      Location:68 → 174
      PUA; PUA domain

    2. NM_001420301.1 → NP_001407230.1  eukaryotic translation initiation factor 2D isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC109262
      UniProtKB/Swiss-Prot
      Q3TDE0, Q3THV5, Q3TTP4, Q61211, Q8C491, Q8CBF1, Q8CC17, Q8R1I9, Q8R3M5

    3. NM_001420302.1 → NP_001407231.1  eukaryotic translation initiation factor 2D isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC109262
      UniProtKB/Swiss-Prot
      Q3TDE0, Q3THV5, Q3TTP4, Q61211, Q8C491, Q8CBF1, Q8CC17, Q8R1I9, Q8R3M5
      Related
      ENSMUSP00000138061.2, ENSMUST00000151874.8

    4. NM_001420309.1 → NP_001407238.1  eukaryotic translation initiation factor 2D isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC109262

    5. NM_001420313.1 → NP_001407242.1  eukaryotic translation initiation factor 2D isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC109262

    6. NM_001420320.1 → NP_001407249.1  eukaryotic translation initiation factor 2D isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC109262

    7. NM_001420322.1 → NP_001407251.1  eukaryotic translation initiation factor 2D isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC109262

    8. NM_001420323.1 → NP_001407252.1  eukaryotic translation initiation factor 2D isoform 7

      Status: VALIDATED

      Source sequence(s)
      AC109262

    9. NM_001420324.1 → NP_001407253.1  eukaryotic translation initiation factor 2D isoform 8

      Status: VALIDATED

      Source sequence(s)
      AC109262

    10. NM_010709.4 → NP_034839.2  eukaryotic translation initiation factor 2D isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC109262
      Consensus CDS
      CCDS35702.1
      UniProtKB/TrEMBL
      E9PUG7
      Related
      ENSMUSP00000108065.3, ENSMUST00000112446.9
      Conserved Domains (4) summary
      cd11608
      Location:477 → 549
      eIF2D_C; C-terminal domain of eIF2D and related proteins
      cd11610
      Location:6 → 81
      eIF2D_N; N-terminal domain of eIF2D and related proteins
      COG2016
      Location:7 → 178
      Tma20; Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis]
      cl00607
      Location:68 → 174
      PUA; PUA domain

    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
      131080903..131115396
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006529165.4 → XP_006529228.1  eukaryotic translation initiation factor 2D isoform X1

      See identical proteins and their annotated locations for XP_006529228.1

      UniProtKB/TrEMBL
      A0A0R4J298
      Related
      ENSMUSP00000137678.2, ENSMUST00000131855.2
      Conserved Domains (3) summary
      cd11608
      Location:477 → 550
      eIF2D_C; C-terminal domain of eIF2D and related proteins
      COG2016
      Location:7 → 178
      Tma20; Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis]
      pfam17832
      Location:2 → 90
      Pre-PUA; Pre-PUA-like domain

    2. XM_006529167.4 → XP_006529230.1  eukaryotic translation initiation factor 2D isoform X4

      UniProtKB/TrEMBL
      Q8C8I3
      Conserved Domains (3) summary
      cd11608
      Location:427 → 500
      eIF2D_C; C-terminal domain of eIF2D and related proteins
      COG2016
      Location:7 → 178
      Tma20; Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis]
      pfam17832
      Location:2 → 90
      Pre-PUA; Pre-PUA-like domain

    3. XM_006529166.3 → XP_006529229.1  eukaryotic translation initiation factor 2D isoform X2

      Conserved Domains (3) summary
      cd11608
      Location:477 → 555
      eIF2D_C; C-terminal domain of eIF2D and related proteins
      COG2016
      Location:7 → 178
      Tma20; Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis]
      pfam17832
      Location:2 → 90
      Pre-PUA; Pre-PUA-like domain

    4. XM_011247928.3 → XP_011246230.1  eukaryotic translation initiation factor 2D isoform X3

      UniProtKB/TrEMBL
      Q8C8I3
      Conserved Domains (3) summary
      cd11608
      Location:477 → 548
      eIF2D_C; C-terminal domain of eIF2D and related proteins
      COG2016
      Location:7 → 178
      Tma20; Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis]
      pfam17832
      Location:2 → 90
      Pre-PUA; Pre-PUA-like domain

    5. XM_017318536.2 → XP_017174025.1  eukaryotic translation initiation factor 2D isoform X6

      UniProtKB/TrEMBL
      Q8C8I3
      Related
      ENSMUSP00000067461.5, ENSMUST00000068791.11
      Conserved Domains (3) summary
      cd11608
      Location:427 → 505
      eIF2D_C; C-terminal domain of eIF2D and related proteins
      COG2016
      Location:7 → 178
      Tma20; Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis]
      pfam17832
      Location:2 → 90
      Pre-PUA; Pre-PUA-like domain

    6. XM_011247929.2 → XP_011246231.1  eukaryotic translation initiation factor 2D isoform X7

      Conserved Domains (1) summary
      cd11608
      Location:227 → 300
      eIF2D_C; C-terminal domain of eIF2D and related proteins

    7. XM_036162349.1 → XP_036018242.1  eukaryotic translation initiation factor 2D isoform X9

      Conserved Domains (1) summary
      cd11608
      Location:227 → 305
      eIF2D_C; C-terminal domain of eIF2D and related proteins

    8. XM_017318549.3 → XP_017174038.1  eukaryotic translation initiation factor 2D isoform X8

      Conserved Domains (1) summary
      cd11608
      Location:227 → 311
      eIF2D_C; C-terminal domain of eIF2D and related proteins

    9. XM_030251679.1 → XP_030107539.1  eukaryotic translation initiation factor 2D isoform X10

      Conserved Domains (1) summary
      cd11608
      Location:227 → 299
      eIF2D_C; C-terminal domain of eIF2D and related proteins

    RNA

    1. XR_003953306.2 RNA Sequence

    2. XR_387149.4 RNA Sequence

    3. XR_004940652.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q61211.3 GenPept UniProtKB/Swiss-Prot:Q61211

    Gene LinkOut

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

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