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

Gene ID: 15463, updated on 5-Mar-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 male infertility. Orthologous to human AGFG1 (ArfGAP with FG repeats 1). [provided by Alliance of Genome Resources, Apr 2022]
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
  • 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. 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
  3. Lack of acrosome formation in Hrb-deficient mice. Kang-Decker N, et al. Science, 2001 Nov 16. PMID 11711676
  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)
  • Targeted (1)  1 citation
  • 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 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 
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
  
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 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
  
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 
acts_upstream_of_or_within spermatogenesis IEA
Inferred from Electronic Annotation
more info
  
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

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