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

Gene ID: 16865, updated on 2-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 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

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