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    Nav3 neuron navigator 3 [ Mus musculus (house mouse) ]

    Gene ID: 260315, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Nav3provided by MGI
    Official Full Name
    neuron navigator 3provided by MGI
    Primary source
    MGI:MGI:2183703
    See related
    Ensembl:ENSMUSG00000020181 AllianceGenome:MGI:2183703
    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
    POMFIL1; unc53H3; Pomfil1p; mKIAA0938; 4732483H20Rik; 9630020C08Rik
    Summary
    Predicted to enable microtubule binding activity. Predicted to be involved in several processes, including negative regulation of cell migration; negative regulation of interleukin-2 production; and regulation of microtubule polymerization or depolymerization. Located in nuclear envelope. Is expressed in central nervous system; liver; lung; notochord; and retina layer. Human ortholog(s) of this gene implicated in opiate dependence. Orthologous to human NAV3 (neuron navigator 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in CNS E18 (RPKM 6.2), cortex adult (RPKM 6.1) and 12 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Nav3 in Genome Data Viewer
    Location:
    10 D1; 10 57.18 cM
    Exon count:
    45
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (109517121..110292148, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (109681260..110455722, complement)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 23041 Neighboring gene STARR-seq mESC enhancer starr_27835 Neighboring gene STARR-seq mESC enhancer starr_27836 Neighboring gene predicted gene, 40757 Neighboring gene STARR-seq mESC enhancer starr_27839 Neighboring gene STARR-seq mESC enhancer starr_27840 Neighboring gene STARR-seq mESC enhancer starr_27841 Neighboring gene STARR-seq mESC enhancer starr_27843 Neighboring gene STARR-seq mESC enhancer starr_27842 Neighboring gene predicted gene, 47340 Neighboring gene STARR-seq mESC enhancer starr_27844 Neighboring gene STARR-seq mESC enhancer starr_27845 Neighboring gene STARR-seq mESC enhancer starr_27846 Neighboring gene RIKEN cDNA 9230102K24 gene Neighboring gene STARR-seq mESC enhancer starr_27847 Neighboring gene STARR-seq mESC enhancer starr_27848 Neighboring gene predicted gene, 36751

    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. Variants of NAV3, a neuronal morphogenesis protein, cause intellectual disability, developmental delay, and microcephaly. Ghaffar A, et al. Commun Biol, 2024 Jul 8. PMID 38977784, Free PMC Article
    2. Sensory deficits in mice hypomorphic for a mammalian homologue of unc-53. Peeters PJ, et al. Brain Res Dev Brain Res, 2004 Jun 21. PMID 15158073
    3. Pore membrane and/or filament interacting like protein 1 (POMFIL1) is predominantly expressed in the nervous system and encodes different protein isoforms. Coy JF, et al. Gene, 2002 May 15. PMID 12062803
    4. Calcium signaling induces partial EMT and renal fibrosis in a Wnt4(mCherry) knock-in mouse model. Naillat F, et al. Biochim Biophys Acta Mol Basis Dis, 2024 Jun. PMID 38653356
    5. Integrated microarray and ChIP analysis identifies multiple Foxa2 dependent target genes in the notochord. Tamplin OJ, et al. Dev Biol, 2011 Dec 15. PMID 22008794

    See all (30) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Variants of NAV3, a neuronal morphogenesis protein, cause intellectual disability, developmental delay, and microcephaly.
      Title: Variants of NAV3, a neuronal morphogenesis protein, cause intellectual disability, developmental delay, and microcephaly.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    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 ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables microtubule binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of interleukin-2 production ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of microtubule depolymerization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in nervous system development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in neurogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of microtubule polymerization ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    colocalizes_with microtubule end ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear envelope IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nuclear outer membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    neuron navigator 3
    Names
    pore membrane and/or filament-interacting-like protein 1
    steerin 3

    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_001081035.2 → NP_001074504.1  neuron navigator 3 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC100120, AC122011, AC129336
      Consensus CDS
      CCDS36054.1
      UniProtKB/TrEMBL
      E9QMF5
      Related
      ENSMUSP00000032719.8, ENSMUST00000032719.15
      Conserved Domains (5) summary
      cd00009
      Location:2033 → 2113
      AAA; The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, ...
      smart00382
      Location:2030 → 2150
      AAA; ATPases associated with a variety of cellular activities
      cd00014
      Location:81 → 182
      CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
      pfam15898
      Location:1775 → 1838
      PRKG1_interact; cGMP-dependent protein kinase interacting domain
      cl21455
      Location:2017 → 2047
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

    2. NM_001368815.1 → NP_001355744.1  neuron navigator 3 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC100120, AC122011, AC129336
      UniProtKB/Swiss-Prot
      Q80TN7
      Conserved Domains (6) summary
      smart00382
      Location:2023 → 2143
      AAA; ATPases associated with a variety of cellular activities
      PHA03307
      Location:979 → 1294
      PHA03307; transcriptional regulator ICP4; Provisional
      cd00014
      Location:81 → 182
      CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
      TIGR04211
      Location:1573 → 1649
      SH3_and_anchor; SH3 domain protein
      pfam05109
      Location:204 → 582
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam15898
      Location:1768 → 1831
      PRKG1_interact; cGMP-dependent protein kinase interacting 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_000076.7 Reference GRCm39 C57BL/6J

      Range
      109517121..110292148 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036155787.1 → XP_036011680.1  neuron navigator 3 isoform X4

      UniProtKB/TrEMBL
      A0A668KM70
      Conserved Domains (5) summary
      smart00382
      Location:1973 → 2093
      AAA; ATPases associated with a variety of cellular activities
      PHA03307
      Location:922 → 1237
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:1519 → 1779
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam05109
      Location:147 → 525
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      cd21286
      Location:24 → 126
      CH_NAV3; calponin homology (CH) domain found in neuron navigator 3

    2. XM_006513680.4 → XP_006513743.1  neuron navigator 3 isoform X8

      Conserved Domains (7) summary
      smart00382
      Location:1853 → 1973
      AAA; ATPases associated with a variety of cellular activities
      PHA03307
      Location:979 → 1297
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:1399 → 1659
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR04211
      Location:1396 → 1472
      SH3_and_anchor; SH3 domain protein
      pfam05109
      Location:204 → 582
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam00307
      Location:81 → 182
      CH; Calponin homology (CH) domain
      pfam15898
      Location:1607 → 1661
      PRKG1_interact; cGMP-dependent protein kinase interacting domain

    3. XM_006513679.4 → XP_006513742.1  neuron navigator 3 isoform X7

      Conserved Domains (7) summary
      smart00382
      Location:1867 → 1987
      AAA; ATPases associated with a variety of cellular activities
      PHA03307
      Location:979 → 1311
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:1413 → 1673
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR04211
      Location:1410 → 1486
      SH3_and_anchor; SH3 domain protein
      pfam05109
      Location:204 → 582
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam00307
      Location:81 → 182
      CH; Calponin homology (CH) domain
      pfam15898
      Location:1621 → 1675
      PRKG1_interact; cGMP-dependent protein kinase interacting domain

    4. XM_006513676.4 → XP_006513739.1  neuron navigator 3 isoform X1

      Conserved Domains (7) summary
      smart00382
      Location:2016 → 2136
      AAA; ATPases associated with a variety of cellular activities
      PHA03307
      Location:979 → 1294
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:1562 → 1822
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR04211
      Location:1559 → 1635
      SH3_and_anchor; SH3 domain protein
      pfam05109
      Location:204 → 582
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam00307
      Location:81 → 182
      CH; Calponin homology (CH) domain
      pfam15898
      Location:1770 → 1824
      PRKG1_interact; cGMP-dependent protein kinase interacting domain

    5. XM_006513677.4 → XP_006513740.1  neuron navigator 3 isoform X3

      Conserved Domains (6) summary
      smart00382
      Location:2007 → 2127
      AAA; ATPases associated with a variety of cellular activities
      PHA03307
      Location:956 → 1271
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:1553 → 1813
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR04211
      Location:1550 → 1626
      SH3_and_anchor; SH3 domain protein
      pfam05109
      Location:262 → 559
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam00307
      Location:81 → 182
      CH; Calponin homology (CH) domain

    6. XM_017313948.3 → XP_017169437.1  neuron navigator 3 isoform X10

      UniProtKB/TrEMBL
      A0A571BDN3
      Related
      ENSMUSP00000158790.2, ENSMUST00000238286.2
      Conserved Domains (6) summary
      smart00382
      Location:1515 → 1635
      AAA; ATPases associated with a variety of cellular activities
      PHA03307
      Location:478 → 793
      PHA03307; transcriptional regulator ICP4; Provisional
      TIGR02169
      Location:1050 → 1321
      SMC_prok_A; chromosome segregation protein SMC, primarily archaeal type
      TIGR04211
      Location:1058 → 1134
      SH3_and_anchor; SH3 domain protein
      pfam05109
      Location:659 → 996
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam15898
      Location:1269 → 1323
      PRKG1_interact; cGMP-dependent protein kinase interacting domain

    7. XM_006513681.5 → XP_006513744.1  neuron navigator 3 isoform X9

      UniProtKB/TrEMBL
      A0A571BDN3
      Conserved Domains (6) summary
      smart00382
      Location:1529 → 1649
      AAA; ATPases associated with a variety of cellular activities
      PHA03307
      Location:478 → 793
      PHA03307; transcriptional regulator ICP4; Provisional
      TIGR02169
      Location:1064 → 1335
      SMC_prok_A; chromosome segregation protein SMC, primarily archaeal type
      TIGR04211
      Location:1072 → 1148
      SH3_and_anchor; SH3 domain protein
      pfam05109
      Location:659 → 1010
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam15898
      Location:1283 → 1337
      PRKG1_interact; cGMP-dependent protein kinase interacting domain

    8. XM_036155788.1 → XP_036011681.1  neuron navigator 3 isoform X5

      Conserved Domains (5) summary
      smart00382
      Location:1950 → 2070
      AAA; ATPases associated with a variety of cellular activities
      PHA03307
      Location:899 → 1214
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:1496 → 1756
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam05109
      Location:205 → 502
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      cd21286
      Location:24 → 126
      CH_NAV3; calponin homology (CH) domain found in neuron navigator 3

    9. XM_017313946.3 → XP_017169435.1  neuron navigator 3 isoform X4

      UniProtKB/TrEMBL
      A0A668KM70
      Related
      ENSMUSP00000159239.2, ENSMUST00000239301.2
      Conserved Domains (5) summary
      smart00382
      Location:1973 → 2093
      AAA; ATPases associated with a variety of cellular activities
      PHA03307
      Location:922 → 1237
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:1519 → 1779
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam05109
      Location:147 → 525
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      cd21286
      Location:24 → 126
      CH_NAV3; calponin homology (CH) domain found in neuron navigator 3

    10. XM_017313945.2 → XP_017169434.1  neuron navigator 3 isoform X2

      Conserved Domains (6) summary
      smart00382
      Location:2009 → 2129
      AAA; ATPases associated with a variety of cellular activities
      PHA03307
      Location:979 → 1294
      PHA03307; transcriptional regulator ICP4; Provisional
      TIGR04211
      Location:1559 → 1635
      SH3_and_anchor; SH3 domain protein
      pfam05109
      Location:204 → 582
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam00307
      Location:81 → 182
      CH; Calponin homology (CH) domain
      pfam15898
      Location:1763 → 1817
      PRKG1_interact; cGMP-dependent protein kinase interacting domain

    11. XM_036155789.1 → XP_036011682.1  neuron navigator 3 isoform X6

      Conserved Domains (5) summary
      smart00382
      Location:1893 → 2013
      AAA; ATPases associated with a variety of cellular activities
      PHA03307
      Location:842 → 1157
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:1439 → 1699
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam05109
      Location:67 → 445
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      cl00030
      Location:1 → 46
      CH_SF; calponin homology (CH) domain superfamily

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_177797.2: Suppressed sequence

      Description
      NM_177797.2: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q80TN7.2 GenPept UniProtKB/Swiss-Prot:Q80TN7

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