U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Avl9 AVL9 cell migration associated [ Mus musculus (house mouse) ]

    Gene ID: 78937, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Avl9provided by MGI
    Official Full Name
    AVL9 cell migration associatedprovided by MGI
    Primary source
    MGI:MGI:1926187
    See related
    Ensembl:ENSMUSG00000029787 AllianceGenome:MGI:1926187
    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
    mKIAA0241; 5830411G16Rik; D730049P16Rik
    Summary
    Predicted to be involved in cell migration. Predicted to be located in recycling endosome. Predicted to be active in cytoplasm. Is expressed in nervous system and sensory organ. Orthologous to human AVL9 (AVL9 cell migration associated). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in whole brain E14.5 (RPKM 9.7), CNS E14 (RPKM 8.9) and 28 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Avl9 in Genome Data Viewer
    Location:
    6 B3; 6 27.72 cM
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (56691720..56738897)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (56714839..56761912)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene phosphodiesterase 1C Neighboring gene STARR-seq mESC enhancer starr_15989 Neighboring gene predicted gene, 22493 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:56654682-56654884 Neighboring gene STARR-seq mESC enhancer starr_15990 Neighboring gene STARR-positive B cell enhancer ABC_E679 Neighboring gene LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated Neighboring gene STARR-seq mESC enhancer starr_15991 Neighboring gene STARR-positive B cell enhancer ABC_E4829 Neighboring gene STARR-seq mESC enhancer starr_15993 Neighboring gene kelch repeat and BTB (POZ) domain containing 2 Neighboring gene predicted gene 10209 Neighboring gene FK506 binding protein 9

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Prediction of the coding sequences of mouse homologues of KIAA gene: II. The complete nucleotide sequences of 400 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2003 Feb 28. PMID 12693553
    2. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article
    3. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article
    4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    5. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell migration ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in recycling endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in recycling endosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    late secretory pathway protein AVL9 homolog
    Names
    AVL9 homolog (S. cerevisiase)

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_030235.1 → NP_084511.1  late secretory pathway protein AVL9 homolog

      See identical proteins and their annotated locations for NP_084511.1

      Status: VALIDATED

      Source sequence(s)
      AK122228, CJ109208
      Consensus CDS
      CCDS51789.1
      UniProtKB/Swiss-Prot
      Q149B3, Q80U56
      Related
      ENSMUSP00000031805.9, ENSMUST00000031805.11
      Conserved Domains (4) summary
      pfam07792
      Location:16 → 76
      Afi1; Docking domain of Afi1 for Arf3 in vesicle trafficking
      pfam08616
      Location:382 → 459
      SPA; Stabilization of polarity axis
      pfam09794
      Location:16 → 521
      Avl9; Transport protein Avl9
      cl11519
      Location:116 → 226
      DENN; DENN (AEX-3) 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_000072.7 Reference GRCm39 C57BL/6J

      Range
      56691720..56738897
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036152408.1 → XP_036008301.1  late secretory pathway protein AVL9 homolog isoform X1

      Conserved Domains (1) summary
      pfam09794
      Location:16 → 521
      Avl9; Transport protein Avl9

    2. XM_036152409.1 → XP_036008302.1  late secretory pathway protein AVL9 homolog isoform X2

      Conserved Domains (1) summary
      cl40632
      Location:166 → 303
      Avl9; Transport protein Avl9

    3. XM_006506790.3 → XP_006506853.1  late secretory pathway protein AVL9 homolog isoform X3

      Conserved Domains (1) summary
      pfam09794
      Location:166 → 303
      Avl9; Transport protein Avl9
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q80U56.2 GenPept UniProtKB/Swiss-Prot:Q80U56

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools