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Aliases for NAV3 Gene

Aliases for NAV3 Gene

  • Neuron Navigator 3 2 3 5
  • Pore Membrane And/Or Filament Interacting Like Protein 1 2 3
  • Unc-53 Homolog 3 3 4
  • STEERIN3 3 4
  • POMFIL1 3 4
  • Unc53H3 3 4
  • Pore Membrane And/Or Filament-Interacting-Like Protein 1 4
  • Steerin 3 2
  • Steerin-3 4
  • KIAA0938 4

External Ids for NAV3 Gene

Previous GeneCards Identifiers for NAV3 Gene

  • GC12P078250
  • GC12P078567
  • GC12P076727
  • GC12P075278
  • GC12P077571

Summaries for NAV3 Gene

Entrez Gene Summary for NAV3 Gene

  • This gene belongs to the neuron navigator family and is expressed predominantly in the nervous system. The encoded protein contains coiled-coil domains and a conserved AAA domain characteristic for ATPases associated with a variety of cellular activities. This gene is similar to unc-53, a Caenorhabditis elegans gene involved in axon guidance. Multiple alternatively spliced transcript variants for this gene have been described but only one has had its full-length nature determined. [provided by RefSeq, Jul 2008]

GeneCards Summary for NAV3 Gene

NAV3 (Neuron Navigator 3) is a Protein Coding gene. Diseases associated with NAV3 include Subcutaneous Panniculitis-Like T-Cell Lymphoma. An important paralog of this gene is NAV2.

UniProtKB/Swiss-Prot for NAV3 Gene

  • May regulate IL2 production by T-cells. May be involved in neuron regeneration.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NAV3 Gene

Genomics for NAV3 Gene

Regulatory Elements for NAV3 Gene

Enhancers for NAV3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH12F077920 0.5 FANTOM5 11.3 +596.3 596288 0.1 TRIM28 NAV3 GC12M077846 ENSG00000258225
GH12F077785 0.2 ENCODE 10.9 +460.9 460877 1.0 HLF NAV3 LOC101928207 GC12M077846
GH12F077577 0.5 ENCODE 6.3 +254.1 254119 2.0 PKNOX1 NAV3 GC12P077572 GC12P077573 GC12P077624
GH12F077998 0.5 Ensembl 5.4 +675.0 674958 1.2 CTCF ZNF654 MTA2 TRIM22 TBX21 RAD21 SMC3 ZNF143 SPI1 NAV3 ENSG00000258225 GC12M077846
GH12F077489 0.2 ENCODE 4.7 +165.3 165341 0.8 PKNOX1 NAV3 PIR47524 LOC105369856
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around NAV3 on UCSC Golden Path with GeneCards custom track

Promoters for NAV3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000089586 660 1799 CTCF TEAD4 SIN3A UBTF ZNF48 ZIC2 RAD21 TEAD3 E2F1 GLIS2

Genomic Location for NAV3 Gene

77,324,641 bp from pter
78,213,012 bp from pter
888,372 bases
Plus strand

Genomic View for NAV3 Gene

Genes around NAV3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NAV3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NAV3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NAV3 Gene

Proteins for NAV3 Gene

  • Protein details for NAV3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Neuron navigator 3
    Protein Accession:
    Secondary Accessions:
    • Q8NFW7
    • Q9Y2E7

    Protein attributes for NAV3 Gene

    2385 amino acids
    Molecular mass:
    255648 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for NAV3 Gene


neXtProt entry for NAV3 Gene

Post-translational modifications for NAV3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for NAV3 Gene

Domains & Families for NAV3 Gene

Protein Domains for NAV3 Gene

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 CH (calponin-homology) domain.
  • Belongs to the Nav/unc-53 family.
  • Contains 1 CH (calponin-homology) domain.
  • Belongs to the Nav/unc-53 family.
genes like me logo Genes that share domains with NAV3: view

No data available for Gene Families for NAV3 Gene

Function for NAV3 Gene

Molecular function for NAV3 Gene

UniProtKB/Swiss-Prot Function:
May regulate IL2 production by T-cells. May be involved in neuron regeneration.

Gene Ontology (GO) - Molecular Function for NAV3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005524 ATP binding IEA --
genes like me logo Genes that share ontologies with NAV3: view
genes like me logo Genes that share phenotypes with NAV3: view

Animal Model Products

miRNA for NAV3 Gene

miRTarBase miRNAs that target NAV3

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NAV3 Gene

Localization for NAV3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NAV3 Gene

Nucleus outer membrane.

Subcellular locations from

Jensen Localization Image for NAV3 Gene COMPARTMENTS Subcellular localization image for NAV3 gene
Compartment Confidence
nucleus 5
cytosol 4
mitochondrion 1

Gene Ontology (GO) - Cellular Components for NAV3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005640 nuclear outer membrane IEA --
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with NAV3: view

Pathways & Interactions for NAV3 Gene

SuperPathways for NAV3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for NAV3 Gene


No data available for Pathways by source and SIGNOR curated interactions for NAV3 Gene

Transcripts for NAV3 Gene

Unigene Clusters for NAV3 Gene

Neuron navigator 3:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for NAV3 Gene

No ASD Table

Relevant External Links for NAV3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for NAV3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for NAV3 Gene

Protein differential expression in normal tissues from HIPED for NAV3 Gene

This gene is overexpressed in Breast (30.3), Cervix (20.3), and Brain (12.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for NAV3 Gene

Protein tissue co-expression partners for NAV3 Gene

NURSA nuclear receptor signaling pathways regulating expression of NAV3 Gene:


SOURCE GeneReport for Unigene cluster for NAV3 Gene:


mRNA Expression by UniProt/SwissProt for NAV3 Gene:

Tissue specificity: Highly expressed in brain. Expressed at low levels in heart and placenta. Present in activated T-cells but not in resting T-cells (at protein level). Down-regulated in primary neuroblastoma.
genes like me logo Genes that share expression patterns with NAV3: view

Primer Products

No data available for mRNA differential expression in normal tissues for NAV3 Gene

Orthologs for NAV3 Gene

This gene was present in the common ancestor of animals.

Orthologs for NAV3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia NAV3 34 35
  • 99.61 (n)
(Canis familiaris)
Mammalia NAV3 34 35
  • 91.35 (n)
(Monodelphis domestica)
Mammalia NAV3 35
  • 91 (a)
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 91 (a)
-- 35
  • 85 (a)
(Bos Taurus)
Mammalia NAV3 34 35
  • 90.96 (n)
(Mus musculus)
Mammalia Nav3 34 16 35
  • 87.67 (n)
(Rattus norvegicus)
Mammalia Nav3 34
  • 87.38 (n)
(Gallus gallus)
Aves NAV3 34 35
  • 81.35 (n)
(Anolis carolinensis)
Reptilia NAV3 35
  • 85 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia nav3 34
  • 75.63 (n)
(Danio rerio)
Actinopterygii nav3 34 35
  • 66.23 (n)
fruit fly
(Drosophila melanogaster)
Insecta sick 35
  • 25 (a)
(Caenorhabditis elegans)
Secernentea unc-53 35
  • 24 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 37 (a)
Species where no ortholog for NAV3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for NAV3 Gene

Gene Tree for NAV3 (if available)
Gene Tree for NAV3 (if available)

Paralogs for NAV3 Gene

Paralogs for NAV3 Gene

genes like me logo Genes that share paralogs with NAV3: view

Variants for NAV3 Gene

Sequence variations from dbSNP and Humsavar for NAV3 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs1002278 -- 77,845,343(+) ACCAT(A/G)TGCTC intron-variant
rs10047518 -- 78,059,973(+) tgtgt(A/G)tgtgt intron-variant
rs10047660 -- 78,045,936(+) GGATT(C/G)GACTT intron-variant
rs1007729 -- 78,003,302(+) AATTA(C/T)TTATC intron-variant
rs10082999 -- 77,926,425(+) TTCCT(A/G)GCAAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for NAV3 Gene

Variant ID Type Subtype PubMed ID
dgv206n27 CNV loss 19166990
dgv2721n54 CNV loss 21841781
dgv2722n54 CNV loss 21841781
dgv297n67 CNV loss 20364138
dgv835n106 CNV deletion 24896259
dgv836n106 OTHER inversion 24896259
esv2199986 CNV deletion 18987734
esv2607464 CNV loss 19546169
esv2611482 CNV insertion 19546169
esv2669115 CNV deletion 23128226
esv2746095 CNV deletion 23290073
esv2746096 CNV deletion 23290073
esv2746098 CNV deletion 23290073
esv2931 CNV loss 18987735
esv3362906 CNV insertion 20981092
esv3549448 CNV deletion 23714750
esv6891 CNV gain 19470904
nsv1035462 CNV gain 25217958
nsv1052327 CNV gain 25217958
nsv1128668 CNV duplication 24896259
nsv1150776 OTHER inversion 26484159
nsv469481 CNV loss 19166990
nsv469485 CNV loss 19166990
nsv507656 OTHER sequence alteration 20534489
nsv518576 CNV loss 19592680
nsv559429 CNV loss 21841781
nsv559430 CNV loss 21841781
nsv559431 CNV loss 21841781
nsv781 CNV insertion 18451855
nsv826443 CNV gain 20364138

Variation tolerance for NAV3 Gene

Residual Variation Intolerance Score: 0.307% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.87; 67.44% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for NAV3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NAV3 Gene

Disorders for NAV3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for NAV3 Gene - From: GeneCards

Disorder Aliases PubMed IDs
subcutaneous panniculitis-like t-cell lymphoma
  • sptcl
- elite association - COSMIC cancer census association via MalaCards
Search NAV3 in MalaCards View complete list of genes associated with diseases


  • Note=A chromosomal aberration disrupting NAV3 has been found in patients with Sezary syndrome (PubMed:16166283). Translocation t(12;18)(q21;q21.2) (PubMed:16166283). {ECO:0000269 PubMed:16166283}.

Relevant External Links for NAV3

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with NAV3: view

No data available for Genatlas for NAV3 Gene

Publications for NAV3 Gene

  1. Pore membrane and/or filament interacting like protein 1 (POMFIL1) is predominantly expressed in the nervous system and encodes different protein isoforms. (PMID: 12062803) Coy J.F. … Poustka A. (Gene 2002) 2 3 4 64
  2. Neuron navigator: a human gene family with homology to unc-53, a cell guidance gene from Caenorhabditis elegans. (PMID: 12079279) Maes T. … Buesa C. (Genomics 2002) 2 3 4 64
  3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  4. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey S.D. … Anand S. (Diabetes Care 2010) 3 46 64
  5. Primary cutaneous T-cell lymphomas show a deletion or translocation affecting NAV3, the human UNC-53 homologue. (PMID: 16166283) Karenko L. … Ranki A. (Cancer Res. 2005) 4 22 64

Products for NAV3 Gene

Sources for NAV3 Gene

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