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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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