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Fyco1 FYVE and coiled-coil domain containing 1 [ Mus musculus (house mouse) ]

Gene ID: 17281, updated on 2-Nov-2024

Summary

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Official Symbol
Fyco1provided by MGI
Official Full Name
FYVE and coiled-coil domain containing 1provided by MGI
Primary source
MGI:MGI:107277
See related
Ensembl:ENSMUSG00000025241 AllianceGenome:MGI:107277
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
Mem2; RUFY3; ZFYVE7; 2810409M01Rik
Summary
Predicted to enable metal ion binding activity. Predicted to be involved in plus-end-directed vesicle transport along microtubule and positive regulation of autophagosome maturation. Predicted to be located in Golgi apparatus. Predicted to be active in autophagosome; late endosome; and lysosome. Is expressed in central nervous system; early conceptus; and retina. Human ortholog(s) of this gene implicated in cataract 18. Orthologous to human FYCO1 (FYVE and coiled-coil domain autophagy adaptor 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in heart adult (RPKM 19.9), testis adult (RPKM 8.7) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Fyco1 in Genome Data Viewer
Location:
9 F4; 9 74.52 cM
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (123618565..123681110, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (123789500..123851899, complement)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_25570 Neighboring gene leucine zipper transcription factor-like 1 Neighboring gene STARR-positive B cell enhancer mm9_chr9:123626087-123626387 Neighboring gene STARR-positive B cell enhancer mm9_chr9:123626696-123626997 Neighboring gene STARR-seq mESC enhancer starr_25571 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:123663531-123663880 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:123665948-123666172 Neighboring gene predicted gene 17021 Neighboring gene STARR-positive B cell enhancer mm9_chr9:123693813-123694114 Neighboring gene C-C motif chemokine receptor 9 Neighboring gene C-X-C motif chemokine receptor 6 Neighboring gene STARR-seq mESC enhancer starr_25572 Neighboring gene STARR-positive B cell enhancer mm9_chr9:123760971-123761272 Neighboring gene predicted gene, 51700 Neighboring gene chemokine (C motif) receptor 1 Neighboring gene autophagy-related 4B 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. The role of FYCO1-dependent autophagy in lens fiber cell differentiation. Khan SY, et al. Autophagy, 2022 Sep. PMID 35343376, Free PMC Article
  2. Cutting edge: FYCO1 recruitment to dectin-1 phagosomes is accelerated by light chain 3 protein and regulates phagosome maturation and reactive oxygen production. Ma J, et al. J Immunol, 2014 Feb 15. PMID 24442442, Free PMC Article
  3. The crystal structure of mouse LC3B in complex with the FYCO1 LIR reveals the importance of the flanking region of the LIR motif. Sakurai S, et al. Acta Crystallogr F Struct Biol Commun, 2017 Mar 1. PMID 28291748, Free PMC Article
  4. FYCO1 and autophagy control the integrity of the haploid male germ cell-specific RNP granules. Da Ros M, et al. Autophagy, 2017 Feb. PMID 27929729, Free PMC Article
  5. Loss of FYCO1 leads to cataract formation. Satoh K, et al. Sci Rep, 2021 Jul 2. PMID 34215815, Free PMC Article

See all (29) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The role of FYCO1-dependent autophagy in lens fiber cell differentiation.
    Title: The role of FYCO1-dependent autophagy in lens fiber cell differentiation.
  2. Loss of FYCO1 leads to cataract formation.
    Title: Loss of FYCO1 leads to cataract formation.
  3. Ribonucleoprotein granule homeostasis is regulated by FYCO1-mediated autophagy.
    Title: FYCO1 and autophagy control the integrity of the haploid male germ cell-specific RNP granules.
  4. The crystal structure of mouse LC3B in complex with the FYCO1 LC3-interacting region (LIR) reveals the importance of the flanking region of the LIR motif.
    Title: The crystal structure of mouse LC3B in complex with the FYCO1 LIR reveals the importance of the flanking region of the LIR motif.
  5. FYVE and coiled-coil domain containing 1 (FYCO1), a protein previously implicated in autophagosome trafficking, is recruited directly by LC3 to Dectin-1 phagosomes.
    Title: Cutting edge: FYCO1 recruitment to dectin-1 phagosomes is accelerated by light chain 3 protein and regulates phagosome maturation and reactive oxygen production.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (4)  1 citation

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 metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in plus-end-directed vesicle transport along microtubule IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in plus-end-directed vesicle transport along microtubule ISO
Inferred from Sequence Orthology
more info
  
involved_in plus-end-directed vesicle transport along microtubule ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of autophagosome maturation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of autophagosome maturation IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of autophagosome maturation ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in Golgi apparatus IEA
Inferred from Electronic Annotation
more info
  
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
  
is_active_in autophagosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in autophagosome ISO
Inferred from Sequence Orthology
more info
  
located_in autophagosome ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
  
is_active_in late endosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in late endosome ISO
Inferred from Sequence Orthology
more info
  
located_in late endosome ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in lysosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in lysosome ISO
Inferred from Sequence Orthology
more info
  
located_in lysosome ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
FYVE and coiled-coil domain-containing protein 1
Names
maternal embryonic message 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_001110253.3 → NP_001103723.2  FYVE and coiled-coil domain-containing protein 1

    See identical proteins and their annotated locations for NP_001103723.2

    Status: VALIDATED

    Source sequence(s)
    AC165425, AC242669, AC242682
    Consensus CDS
    CCDS40819.1
    UniProtKB/Swiss-Prot
    Q3V385, Q7TMT0, Q8BJN2, Q8VDC1
    Related
    ENSMUSP00000133222.3, ENSMUST00000167595.9
    Conserved Domains (4) summary
    TIGR02168
    Location:294 → 1110
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    cd15726
    Location:1130 → 1186
    FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins
    pfam13897
    Location:1378 → 1423
    GOLD_2; Golgi-dynamics membrane-trafficking
    cl02689
    Location:59 → 164
    RUN; RUN domain

  2. NM_148925.4 → NP_683727.3  FYVE and coiled-coil domain-containing protein 1

    See identical proteins and their annotated locations for NP_683727.3

    Status: VALIDATED

    Source sequence(s)
    AC165425, AC242669
    Consensus CDS
    CCDS40819.1
    UniProtKB/Swiss-Prot
    Q3V385, Q7TMT0, Q8BJN2, Q8VDC1
    Related
    ENSMUSP00000081764.6, ENSMUST00000084715.14
    Conserved Domains (4) summary
    TIGR02168
    Location:294 → 1110
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    cd15726
    Location:1130 → 1186
    FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins
    pfam13897
    Location:1378 → 1423
    GOLD_2; Golgi-dynamics membrane-trafficking
    cl02689
    Location:59 → 164
    RUN; RUN 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_000075.7 Reference GRCm39 C57BL/6J

    Range
    123618565..123681110 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036154635.1 → XP_036010528.1  FYVE and coiled-coil domain-containing protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q3V385, Q7TMT0, Q8BJN2, Q8VDC1
    Conserved Domains (4) summary
    TIGR02168
    Location:294 → 1110
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    cd15726
    Location:1130 → 1186
    FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins
    pfam13897
    Location:1378 → 1423
    GOLD_2; Golgi-dynamics membrane-trafficking
    cl02689
    Location:59 → 164
    RUN; RUN domain

  2. XM_030244077.2 → XP_030099937.1  FYVE and coiled-coil domain-containing protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q3V385, Q7TMT0, Q8BJN2, Q8VDC1
    Conserved Domains (4) summary
    TIGR02168
    Location:294 → 1110
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    cd15726
    Location:1130 → 1186
    FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins
    pfam13897
    Location:1378 → 1423
    GOLD_2; Golgi-dynamics membrane-trafficking
    cl02689
    Location:59 → 164
    RUN; RUN domain

  3. XM_017313159.3 → XP_017168648.1  FYVE and coiled-coil domain-containing protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q3V385, Q7TMT0, Q8BJN2, Q8VDC1
    Conserved Domains (4) summary
    TIGR02168
    Location:294 → 1110
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    cd15726
    Location:1130 → 1186
    FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins
    pfam13897
    Location:1378 → 1423
    GOLD_2; Golgi-dynamics membrane-trafficking
    cl02689
    Location:59 → 164
    RUN; RUN domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8VDC1.1 GenPept UniProtKB/Swiss-Prot:Q8VDC1

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