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

    Gene ID: 17281, updated on 9-Dec-2024

    Summary

    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, Dec 2024]
    Expression
    Ubiquitous expression in heart adult (RPKM 19.9), testis adult (RPKM 8.7) and 28 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    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

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    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

    Preferred Names
    FYVE and coiled-coil domain-containing protein 1
    Names
    maternal embryonic message 2

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001110253.3NP_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:2941110
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd15726
      Location:11301186
      FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins
      pfam13897
      Location:13781423
      GOLD_2; Golgi-dynamics membrane-trafficking
      cl02689
      Location:59164
      RUN; RUN domain
    2. NM_148925.4NP_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:2941110
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd15726
      Location:11301186
      FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins
      pfam13897
      Location:13781423
      GOLD_2; Golgi-dynamics membrane-trafficking
      cl02689
      Location:59164
      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_036154635.1XP_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:2941110
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd15726
      Location:11301186
      FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins
      pfam13897
      Location:13781423
      GOLD_2; Golgi-dynamics membrane-trafficking
      cl02689
      Location:59164
      RUN; RUN domain
    2. XM_030244077.2XP_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:2941110
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd15726
      Location:11301186
      FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins
      pfam13897
      Location:13781423
      GOLD_2; Golgi-dynamics membrane-trafficking
      cl02689
      Location:59164
      RUN; RUN domain
    3. XM_017313159.3XP_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:2941110
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cd15726
      Location:11301186
      FYVE_FYCO1; FYVE domain found in FYVE and coiled-coil domain-containing protein 1 (FYCO1) and similar proteins
      pfam13897
      Location:13781423
      GOLD_2; Golgi-dynamics membrane-trafficking
      cl02689
      Location:59164
      RUN; RUN domain