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    Agfg1 ArfGAP with FG repeats 1 [ Mus musculus (house mouse) ]

    Gene ID: 15463, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Agfg1provided by MGI
    Official Full Name
    ArfGAP with FG repeats 1provided by MGI
    Primary source
    MGI:MGI:1333754
    See related
    Ensembl:ENSMUSG00000026159 AllianceGenome:MGI:1333754
    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
    Hrb; RAB; Rip; C130049H11Rik; D730048C23Rik
    Summary
    Predicted to enable DNA binding activity; GTPase activator activity; and metal ion binding activity. Acts upstream of or within acrosome assembly; intermediate filament organization; and spermatid nucleus differentiation. Located in cell projection; cytoplasmic vesicle; and neuronal cell body. Used to study oligoasthenoteratozoospermia. Orthologous to human AGFG1 (ArfGAP with FG repeats 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in testis adult (RPKM 19.1), liver E14.5 (RPKM 13.1) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Agfg1 in Genome Data Viewer
    Location:
    1 C5; 1 42.55 cM
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (82816738..82878722)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (82839017..82901001)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E219 Neighboring gene predicted gene, 17764 Neighboring gene predicted gene, 34450 Neighboring gene STARR-positive B cell enhancer mm9_chr1:82835787-82836088 Neighboring gene STARR-seq mESC enhancer starr_01485 Neighboring gene STARR-seq mESC enhancer starr_01486 Neighboring gene STARR-seq mESC enhancer starr_01488 Neighboring gene STARR-seq mESC enhancer starr_01489 Neighboring gene potassium channel tetramerisation domain containing 3 pseudogene Neighboring gene solute carrier family 19, member 3 Neighboring gene nascent polypeptide-associated complex alpha polypeptide pseudogene

    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. A mouse model of familial oligoasthenoteratozoospermia. Juneja SC, et al. Hum Reprod, 2005 Apr. PMID 15705627
    2. Lack of acrosome formation in Hrb-deficient mice. Kang-Decker N, et al. Science, 2001 Nov 16. PMID 11711676
    3. HIV-1 Rev-binding protein accelerates cellular uptake of iron to drive Notch-induced T cell leukemogenesis in mice. Khwaja SS, et al. J Clin Invest, 2010 Jul. PMID 20516639, Free PMC Article
    4. Characterization of BRD4 during mammalian postmeiotic sperm development. Bryant JM, et al. Mol Cell Biol, 2015 Apr. PMID 25691659, Free PMC Article
    5. Molecular basis for the sorting of the SNARE VAMP7 into endocytic clathrin-coated vesicles by the ArfGAP Hrb. Pryor PR, et al. Cell, 2008 Sep 5. PMID 18775314, Free PMC Article

    See all (32) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Study demonstrates that the clathrin-mediated endocytosis of the SNARE VAMP7 is directly mediated by Hrb, a clathrin adaptor and ArfGAP.
      Title: Molecular basis for the sorting of the SNARE VAMP7 into endocytic clathrin-coated vesicles by the ArfGAP Hrb.
    2. Lack of an acrosome in Hrb mutant spermatids does not prevent the development of the acroplaxome. In the Hrb mutant, myosin-Va-bound proacrosome vesicles tether to the acroplaxome, where they flatten and form a flat sac, designated pseudoacrosome.
      Title: The acroplaxome is the docking site of Golgi-derived myosin Va/Rab27a/b- containing proacrosomal vesicles in wild-type and Hrb mutant mouse spermatids.
    3. required for docking and/or fusion of proacrosomic vesicles during acrosome biogenesis
      Title: Lack of acrosome formation in Hrb-deficient mice.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (1)  1 citation

    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 DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables GTPase activator activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in acrosome assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within acrosome assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in intermediate filament organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within intermediate filament organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in spermatid nucleus differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within spermatid nucleus differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cell projection IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in cytoplasmic vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasmic vesicle IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in neuronal cell body IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    arf-GAP domain and FG repeat-containing protein 1
    Names
    HIV-1 Rev binding protein
    HIV-1 Rev-binding protein homolog
    arf-GAP domain and FG repeats-containing protein 1
    nucleoporin-like protein RIP

    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_001310713.1 → NP_001297642.1  arf-GAP domain and FG repeat-containing protein 1 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 4. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 4.
      Source sequence(s)
      AC125444, AK048326, AK049400, CJ159641
      Consensus CDS
      CCDS78634.1
      UniProtKB/Swiss-Prot
      Q8K2K6
      Related
      ENSMUSP00000109071.3, ENSMUST00000113444.8
      Conserved Domains (1) summary
      smart00105
      Location:14 → 135
      ArfGap; Putative GTP-ase activating proteins for the small GTPase, ARF

    2. NM_001347077.1 → NP_001334006.1  arf-GAP domain and FG repeat-containing protein 1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC125444, AC138214
      Consensus CDS
      CCDS83564.1
      UniProtKB/TrEMBL
      A0A087WSR7
      Related
      ENSMUSP00000141157.2, ENSMUST00000190052.7

    3. NM_001368850.1 → NP_001355779.1  arf-GAP domain and FG repeat-containing protein 1 isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) represents the longest transcript and encodes the longest isoform (4).
      Source sequence(s)
      AC125444, AC138214
      Consensus CDS
      CCDS87854.1
      UniProtKB/Swiss-Prot
      O70448, Q8BQL5, Q8CDK9, Q8K2K6
      UniProtKB/TrEMBL
      A0A087WR52
      Related
      ENSMUSP00000140785.2, ENSMUST00000186302.7
      Conserved Domains (3) summary
      PHA03247
      Location:418 → 548
      PHA03247; large tegument protein UL36; Provisional
      COG5347
      Location:8 → 268
      COG5347; GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    4. NM_010472.3 → NP_034602.1  arf-GAP domain and FG repeat-containing protein 1 isoform 1

      See identical proteins and their annotated locations for NP_034602.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes isoform 1.
      Source sequence(s)
      AC125444, AK048326, CJ159641
      Consensus CDS
      CCDS15100.1
      UniProtKB/TrEMBL
      A0A087WR52
      Related
      ENSMUSP00000140170.2, ENSMUST00000189220.7
      Conserved Domains (1) summary
      smart00105
      Location:14 → 135
      ArfGap; Putative GTP-ase activating proteins for the small GTPase, ARF

    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
      82816738..82878722
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006496430.4 → XP_006496493.1  arf-GAP domain and FG repeat-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A087WR52
      Conserved Domains (2) summary
      COG5347
      Location:8 → 268
      COG5347; GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    2. XM_006496432.4 → XP_006496495.1  arf-GAP domain and FG repeat-containing protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A087WR52
      Conserved Domains (2) summary
      COG5347
      Location:8 → 268
      COG5347; GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    3. XM_006496439.4 → XP_006496502.1  arf-GAP domain and FG repeat-containing protein 1 isoform X10

      Conserved Domains (4) summary
      PRK12799
      Location:382 → 523
      motB; flagellar motor protein MotB; Reviewed
      COG5347
      Location:8 → 268
      COG5347; GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)
      pfam11179
      Location:159 → 439
      DUF2967; Protein of unknown function (DUF2967)

    4. XM_006496431.4 → XP_006496494.1  arf-GAP domain and FG repeat-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A087WR52
      Conserved Domains (3) summary
      COG5347
      Location:8 → 268
      COG5347; GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
      PRK12727
      Location:385 → 528
      PRK12727; flagellar biosynthesis protein FlhF
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    5. XM_036161582.1 → XP_036017475.1  arf-GAP domain and FG repeat-containing protein 1 isoform X4

      UniProtKB/TrEMBL
      A0A087WR52
      Conserved Domains (3) summary
      COG5347
      Location:8 → 268
      COG5347; GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
      PRK12727
      Location:385 → 540
      PRK12727; flagellar biosynthesis protein FlhF
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    6. XM_006496434.4 → XP_006496497.1  arf-GAP domain and FG repeat-containing protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A087WR52
      Conserved Domains (3) summary
      PHA03247
      Location:417 → 547
      PHA03247; large tegument protein UL36; Provisional
      COG5347
      Location:8 → 268
      COG5347; GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    7. XM_006496435.4 → XP_006496498.1  arf-GAP domain and FG repeat-containing protein 1 isoform X6

      UniProtKB/TrEMBL
      A0A087WR52
      Conserved Domains (3) summary
      COG5347
      Location:8 → 268
      COG5347; GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
      PRK12727
      Location:385 → 524
      PRK12727; flagellar biosynthesis protein FlhF
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    8. XM_006496438.4 → XP_006496501.1  arf-GAP domain and FG repeat-containing protein 1 isoform X9

      Conserved Domains (3) summary
      COG5347
      Location:8 → 268
      COG5347; GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)
      pfam17823
      Location:381 → 525
      DUF5585; Family of unknown function (DUF5585)

    9. XM_017316914.2 → XP_017172403.1  arf-GAP domain and FG repeat-containing protein 1 isoform X8

      Conserved Domains (2) summary
      pfam05109
      Location:355 → 533
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    10. XM_006496440.4 → XP_006496503.1  arf-GAP domain and FG repeat-containing protein 1 isoform X11

      UniProtKB/TrEMBL
      A0A087WNV1, A0A087WR52
      Related
      ENSMUSP00000139503.2, ENSMUST00000187899.7
      Conserved Domains (2) summary
      PHA03247
      Location:378 → 508
      PHA03247; large tegument protein UL36; Provisional
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    11. XM_030249680.1 → XP_030105540.1  arf-GAP domain and FG repeat-containing protein 1 isoform X13

      UniProtKB/TrEMBL
      A0A087WR52
      Conserved Domains (2) summary
      PHA03247
      Location:347 → 515
      PHA03247; large tegument protein UL36; Provisional
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    12. XM_036161673.1 → XP_036017566.1  arf-GAP domain and FG repeat-containing protein 1 isoform X15

      Conserved Domains (1) summary
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    13. XM_030249597.1 → XP_030105457.1  arf-GAP domain and FG repeat-containing protein 1 isoform X7

      Conserved Domains (2) summary
      PRK12727
      Location:345 → 488
      PRK12727; flagellar biosynthesis protein FlhF
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    14. XM_030249652.1 → XP_030105512.1  arf-GAP domain and FG repeat-containing protein 1 isoform X12

      Conserved Domains (2) summary
      PHA03247
      Location:377 → 507
      PHA03247; large tegument protein UL36; Provisional
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    15. XM_036161661.1 → XP_036017554.1  arf-GAP domain and FG repeat-containing protein 1 isoform X14

      UniProtKB/TrEMBL
      A0A087WR52
      Conserved Domains (2) summary
      PRK12727
      Location:345 → 484
      PRK12727; flagellar biosynthesis protein FlhF
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    16. XM_036161682.1 → XP_036017575.1  arf-GAP domain and FG repeat-containing protein 1 isoform X16

      Conserved Domains (1) summary
      cd08857
      Location:13 → 128
      ArfGap_AGFG1; ArfGAP domain of AGFG1 (ArfGAP domain and FG repeat-containing protein 1)

    RNA

    1. XR_001781825.2 RNA Sequence

    2. XR_003952111.1 RNA Sequence

    3. XR_001781822.2 RNA Sequence

    4. XR_003952114.1 RNA Sequence

    5. XR_004940179.1 RNA Sequence

    6. XR_373537.5 RNA Sequence

    7. XR_004940186.1 RNA Sequence

    8. XR_004940189.1 RNA Sequence

    9. XR_004940185.1 RNA Sequence

    10. XR_004940184.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8K2K6.2 GenPept UniProtKB/Swiss-Prot:Q8K2K6

    Gene LinkOut

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