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    Rabggtb Rab geranylgeranyl transferase, b subunit [ Mus musculus (house mouse) ]

    Gene ID: 19352, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Rabggtbprovided by MGI
    Official Full Name
    Rab geranylgeranyl transferase, b subunitprovided by MGI
    Primary source
    MGI:MGI:99537
    See related
    Ensembl:ENSMUSG00000038975 AllianceGenome:MGI:99537
    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
    Summary
    Predicted to enable isoprenoid binding activity; small GTPase binding activity; and zinc ion binding activity. Predicted to contribute to Rab geranylgeranyltransferase activity. Predicted to be involved in protein geranylgeranylation. Predicted to be part of Rab-protein geranylgeranyltransferase complex. Is expressed in several structures, including central nervous system; genitourinary system; liver; stomach; and thymus. Orthologous to human RABGGTB (Rab geranylgeranyltransferase subunit beta). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in liver E14 (RPKM 39.6), liver E14.5 (RPKM 35.5) and 25 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    3 H3; 3 78.76 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (153612926..153618603, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (153907289..153912966, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene ankyrin repeat and SOCS box-containing 17, opposite strand Neighboring gene ankyrin repeat and SOCS box-containing 17 Neighboring gene predicted gene, 24395 Neighboring gene mutS homolog 4 Neighboring gene small nucleolar RNA, C/D box 45B Neighboring gene small nucleolar RNA, C/D box 45C Neighboring gene STARR-seq mESC enhancer starr_09325 Neighboring gene predicted gene, 24494 Neighboring gene STARR-positive B cell enhancer ABC_E6148 Neighboring gene acyl-Coenzyme A dehydrogenase, medium chain Neighboring gene STARR-seq mESC enhancer starr_09326 Neighboring gene STARR-seq mESC enhancer starr_09327 Neighboring gene solute carrier family 44, member 5 Neighboring gene STARR-seq mESC enhancer starr_09328 Neighboring gene predicted gene, 40185

    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. Studies of the mouse Rab geranylgeranyl transferase beta subunit: gene structure, expression and regulation. Chinpaisal C, et al. Gene, 1997 Jan 15. PMID 9031634
    2. The cytoplasmic domain of chondrolectin interacts with the beta-subunit of Rab geranylgeranyl transferase. Claessens A, et al. Cell Mol Biol Lett, 2008. PMID 18161010, Free PMC Article
    3. Chromosome localization and characterization of the mouse and human zinc finger protein 265 gene. Adams DJ, et al. Cytogenet Cell Genet, 2000. PMID 10773668
    4. Studies of cloning, chromosomal mapping, and embryonic expression of the mouse Rab geranylgeranyl transferase beta subunit. Wei LN, et al. Cell Growth Differ, 1995 May. PMID 7544156
    5. Characterization of an exchangeable gene trap using pU-17 carrying a stop codon-beta geo cassette. Taniwaki T, et al. Dev Growth Differ, 2005 Apr. PMID 15840001

    See all (24) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The function of chodl was investigated by searching for its protein interaction partners.
      Title: The cytoplasmic domain of chondrolectin interacts with the beta-subunit of Rab geranylgeranyl transferase.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (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
    contributes_to Rab geranylgeranyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables Rab geranylgeranyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables catalytic activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables isoprenoid binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables prenyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein prenyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables small GTPase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in protein geranylgeranylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of Rab-protein geranylgeranyltransferase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of Rab-protein geranylgeranyltransferase complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    geranylgeranyl transferase type-2 subunit beta
    Names
    GGTase-II-beta
    RAB geranylgeranyltransferase, beta subunit
    geranylgeranyl transferase type II subunit beta
    rab GG transferase beta
    rab GGTase beta
    rab geranyl-geranyltransferase subunit beta
    type II protein geranyl-geranyltransferase subunit beta
    NP_001156950.1
    NP_001156951.1
    NP_035361.2

    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_001163478.1 → NP_001156950.1  geranylgeranyl transferase type-2 subunit beta isoform 2

      See identical proteins and their annotated locations for NP_001156950.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AK160162, CX205055
      Consensus CDS
      CCDS51097.1
      UniProtKB/TrEMBL
      Q3TVF4
      Related
      ENSMUSP00000087396.5, ENSMUST00000089950.11
      Conserved Domains (1) summary
      cd02894
      Location:18 → 301
      GGTase-II; Geranylgeranyltransferase type II (GGTase-II)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). GGTase-IIs are a subgroup of the protein prenyltransferase family of lipid-modifying ...

    2. NM_001163479.1 → NP_001156951.1  geranylgeranyl transferase type-2 subunit beta isoform 3

      See identical proteins and their annotated locations for NP_001156951.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (3) has a shorter and distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AC087184, AK160162, CN456589
      UniProtKB/TrEMBL
      Q3TVF4
      Conserved Domains (1) summary
      cd02894
      Location:1 → 261
      GGTase-II; Geranylgeranyltransferase type II (GGTase-II)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). GGTase-IIs are a subgroup of the protein prenyltransferase family of lipid-modifying ...

    3. NM_011231.2 → NP_035361.2  geranylgeranyl transferase type-2 subunit beta isoform 1

      See identical proteins and their annotated locations for NP_035361.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AK160162, BC132473, BX512972
      Consensus CDS
      CCDS17923.1
      UniProtKB/Swiss-Prot
      A2RTE6, P53612
      Related
      ENSMUSP00000129481.2, ENSMUST00000167111.6
      Conserved Domains (2) summary
      PLN03201
      Location:22 → 331
      PLN03201; RAB geranylgeranyl transferase beta-subunit; Provisional
      cd02894
      Location:26 → 309
      GGTase-II; Geranylgeranyltransferase type II (GGTase-II)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). GGTase-IIs are a subgroup of the protein prenyltransferase family of lipid-modifying ...

    RNA

    1. NR_028094.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' end, uses an alternate internal splice junction, and has an alternate internal exon compared to variant 1. The internal alternate exon contains an in-frame termination codon, making this transcript a nonsense-mediated mRNA decay (NMD) candidate. Therefore, this transcript is not thought to be protein-coding.
      Source sequence(s)
      AK160162, CF732295, CX205055
      Related
      ENSMUST00000198350.5

    2. NR_028095.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) uses an alternate internal splice junction and has an alternate internal exon compared to variant 1. The internal alternate exon contains an in-frame termination codon, making this transcript a nonsense-mediated mRNA decay (NMD) candidate. Therefore, this transcript is not thought to be protein-coding.
      Source sequence(s)
      AF231926, AK160162, BX512972
      Related
      ENSMUST00000196266.5

    3. NR_028096.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) has an alternate internal exon compared to variant 1. The internal alternate exon contains an in-frame termination codon, making this transcript a nonsense-mediated mRNA decay (NMD) candidate. Therefore, this transcript is not thought to be protein-coding.
      Source sequence(s)
      AK160162, BC145325, BX512972

    4. NR_028097.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) differs in the 5' end, uses an alternate internal splice junction, and has an alternate internal exon compared to variant 1. The internal alternate exon contains an in-frame termination codon, making this transcript a nonsense-mediated mRNA decay (NMD) candidate. Therefore, this transcript is not thought to be protein-coding.
      Source sequence(s)
      AC087184, AK160162, CV562676

    5. NR_028098.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) differs in the 5' end and uses an alternate internal splice junction compared to variant 1. The alternate internal splice junction causes a frameshift, making this transcript a nonsense-mediated mRNA decay (NMD) candidate. Therefore, this transcript is not thought to be protein-coding.
      Source sequence(s)
      AC087184, AK160162, BG076913

    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_000069.7 Reference GRCm39 C57BL/6J

      Range
      153612926..153618603 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P53612.2 GenPept UniProtKB/Swiss-Prot:P53612

    Gene LinkOut

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