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    Rabepk Rab9 effector protein with kelch motifs [ Mus musculus (house mouse) ]

    Gene ID: 227746, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Rabepkprovided by MGI
    Official Full Name
    Rab9 effector protein with kelch motifsprovided by MGI
    Primary source
    MGI:MGI:2139530
    See related
    Ensembl:ENSMUSG00000070953 AllianceGenome:MGI:2139530
    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
    Rab9p40; 8430412M01Rik; 9530020D24Rik
    Summary
    Predicted to be located in endosome and membrane. Is expressed in embryo. Orthologous to human RABEPK (Rab9 effector protein with kelch motifs). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in testis adult (RPKM 48.4), genital fat pad adult (RPKM 5.2) and 18 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    2 B; 2 22.94 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (34662946..34690200, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (34774609..34800196, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene predicted gene, 34372 Neighboring gene DnaJ (Hsp40) homolog, subfamily B, member 6 pseudogene Neighboring gene GTPase activating protein and VPS9 domains 1 Neighboring gene STARR-seq mESC enhancer starr_04265 Neighboring gene heat shock protein 5 Neighboring gene predicted gene, 53241 Neighboring gene STARR-seq mESC enhancer starr_04266 Neighboring gene STARR-seq mESC enhancer starr_04267 Neighboring gene F-box and WD-40 domain protein 2 Neighboring gene STARR-seq mESC enhancer starr_04268 Neighboring gene beta-1,3-galactosyltransferase 9

    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. GRP78/BiP is required for cell proliferation and protecting the inner cell mass from apoptosis during early mouse embryonic development. Luo S, et al. Mol Cell Biol, 2006 Aug. PMID 16847323, Free PMC Article
    2. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
    3. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
    4. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article
    5. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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

    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    rab9 effector protein with kelch motifs
    Names
    Rab9 effector p40

    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_001374669.1 → NP_001361598.1  rab9 effector protein with kelch motifs isoform 2

      Status: VALIDATED

      Source sequence(s)
      AL929106
      Consensus CDS
      CCDS89479.1
      UniProtKB/TrEMBL
      A2AUF7, B0R0S4
      Related
      ENSMUSP00000113099.2, ENSMUST00000118108.2
      Conserved Domains (4) summary
      PLN02193
      Location:126 → 294
      PLN02193; nitrile-specifier protein
      sd00038
      Location:86 → 135
      Kelch; KELCH repeat [structural motif]
      pfam07646
      Location:30 → 82
      Kelch_2; Kelch motif
      pfam13415
      Location:99 → 147
      Kelch_3; Galactose oxidase, central domain

    2. NM_145522.4 → NP_663497.2  rab9 effector protein with kelch motifs isoform 1

      See identical proteins and their annotated locations for NP_663497.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK035343, AL929106
      Consensus CDS
      CCDS15951.1
      UniProtKB/Swiss-Prot
      Q8BZG7, Q8VCH5
      UniProtKB/TrEMBL
      A2AUF7
      Related
      ENSMUSP00000122360.2, ENSMUST00000145903.8
      Conserved Domains (4) summary
      PLN02193
      Location:134 → 302
      PLN02193; nitrile-specifier protein
      sd00038
      Location:94 → 143
      Kelch; KELCH repeat [structural motif]
      pfam07646
      Location:38 → 90
      Kelch_2; Kelch motif
      pfam13415
      Location:107 → 155
      Kelch_3; Galactose oxidase, central 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_000068.8 Reference GRCm39 C57BL/6J

      Range
      34662946..34690200 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036160906.1 → XP_036016799.1  rab9 effector protein with kelch motifs isoform X6

      Conserved Domains (4) summary
      PLN02193
      Location:133 → 283
      PLN02193; nitrile-specifier protein
      sd00038
      Location:94 → 142
      Kelch; KELCH repeat [structural motif]
      pfam07646
      Location:38 → 88
      Kelch_2; Kelch motif
      pfam13415
      Location:107 → 154
      Kelch_3; Galactose oxidase, central domain

    2. XM_017317453.3 → XP_017172942.1  rab9 effector protein with kelch motifs isoform X5

      Conserved Domains (4) summary
      PLN02193
      Location:134 → 284
      PLN02193; nitrile-specifier protein
      sd00038
      Location:94 → 143
      Kelch; KELCH repeat [structural motif]
      pfam07646
      Location:38 → 90
      Kelch_2; Kelch motif
      pfam13415
      Location:107 → 155
      Kelch_3; Galactose oxidase, central domain

    3. XM_036160907.1 → XP_036016800.1  rab9 effector protein with kelch motifs isoform X7

      Conserved Domains (4) summary
      PLN02193
      Location:126 → 276
      PLN02193; nitrile-specifier protein
      sd00038
      Location:86 → 135
      Kelch; KELCH repeat [structural motif]
      pfam07646
      Location:30 → 80
      Kelch_2; Kelch motif
      pfam13415
      Location:99 → 147
      Kelch_3; Galactose oxidase, central domain

    4. XM_030250015.2 → XP_030105875.1  rab9 effector protein with kelch motifs isoform X2

      UniProtKB/TrEMBL
      A2AUF7
      Conserved Domains (4) summary
      PLN02193
      Location:125 → 293
      PLN02193; nitrile-specifier protein
      sd00038
      Location:86 → 134
      Kelch; KELCH repeat [structural motif]
      pfam07646
      Location:30 → 82
      Kelch_2; Kelch motif
      pfam13415
      Location:99 → 146
      Kelch_3; Galactose oxidase, central domain

    5. XM_030250020.2 → XP_030105880.1  rab9 effector protein with kelch motifs isoform X4

      Conserved Domains (3) summary
      PLN02193
      Location:58 → 226
      PLN02193; nitrile-specifier protein
      sd00038
      Location:19 → 67
      Kelch; KELCH repeat [structural motif]
      pfam13415
      Location:32 → 79
      Kelch_3; Galactose oxidase, central domain

    6. XM_006497987.5 → XP_006498050.1  rab9 effector protein with kelch motifs isoform X3

      See identical proteins and their annotated locations for XP_006498050.1

      Conserved Domains (3) summary
      PLN02193
      Location:59 → 227
      PLN02193; nitrile-specifier protein
      sd00038
      Location:19 → 68
      Kelch; KELCH repeat [structural motif]
      pfam13415
      Location:32 → 80
      Kelch_3; Galactose oxidase, central domain

    7. XM_006497989.4 → XP_006498052.1  rab9 effector protein with kelch motifs isoform X9

      Conserved Domains (2) summary
      PLN02193
      Location:7 → 175
      PLN02193; nitrile-specifier protein
      sd00038
      Location:20 → 70
      Kelch; KELCH repeat [structural motif]

    8. XM_030250025.2 → XP_030105885.1  rab9 effector protein with kelch motifs isoform X8

      Conserved Domains (2) summary
      PLN02193
      Location:8 → 176
      PLN02193; nitrile-specifier protein
      sd00038
      Location:21 → 72
      Kelch; KELCH repeat [structural motif]

    9. XM_006497984.5 → XP_006498047.1  rab9 effector protein with kelch motifs isoform X1

      UniProtKB/TrEMBL
      A2AUF7
      Conserved Domains (4) summary
      PLN02193
      Location:133 → 301
      PLN02193; nitrile-specifier protein
      sd00038
      Location:94 → 142
      Kelch; KELCH repeat [structural motif]
      pfam07646
      Location:38 → 90
      Kelch_2; Kelch motif
      pfam13415
      Location:107 → 154
      Kelch_3; Galactose oxidase, central domain

    10. XM_030250019.2 → XP_030105879.1  rab9 effector protein with kelch motifs isoform X4

      Conserved Domains (3) summary
      PLN02193
      Location:58 → 226
      PLN02193; nitrile-specifier protein
      sd00038
      Location:19 → 67
      Kelch; KELCH repeat [structural motif]
      pfam13415
      Location:32 → 79
      Kelch_3; Galactose oxidase, central domain

    11. XM_006497986.4 → XP_006498049.1  rab9 effector protein with kelch motifs isoform X3

      See identical proteins and their annotated locations for XP_006498049.1

      Conserved Domains (3) summary
      PLN02193
      Location:59 → 227
      PLN02193; nitrile-specifier protein
      sd00038
      Location:19 → 68
      Kelch; KELCH repeat [structural motif]
      pfam13415
      Location:32 → 80
      Kelch_3; Galactose oxidase, central domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8VCH5.2 GenPept UniProtKB/Swiss-Prot:Q8VCH5

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