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    Unc5d unc-5 netrin receptor D [ Rattus norvegicus (Norway rat) ]

    Gene ID: 306534, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Unc5dprovided by RGD
    Official Full Name
    unc-5 netrin receptor Dprovided by RGD
    Primary source
    RGD:1309245
    See related
    EnsemblRapid:ENSRNOG00000011858 AllianceGenome:RGD:1309245
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable netrin receptor activity. Predicted to be involved in axon guidance and cell-cell adhesion via plasma-membrane adhesion molecules. Predicted to act upstream of or within pyramidal neuron differentiation and regulation of neuron migration. Predicted to be located in cell surface. Orthologous to human UNC5D (unc-5 netrin receptor D). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 66.7), Adrenal (RPKM 25.7) and 5 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Unc5d in Genome Data Viewer
    Location:
    16q12.3
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (69563099..70109862)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (62860119..63406932)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (67047803..67601002)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120097502 Neighboring gene ribosomal protein S20, pseudogene 8 Neighboring gene transfer RNA leucine (anticodon AAG) 8 Neighboring gene U2 spliceosomal RNA Neighboring gene transfer RNA serine (anticodon AGA) 51 Neighboring gene NME/NM23 nucleoside diphosphate kinase 1, pseudogene 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. The cortical subventricular zone-specific molecule Svet1 is part of the nuclear RNA coded by the putative netrin receptor gene Unc5d and is expressed in multipolar migrating cells. Sasaki S, et al. Mol Cell Neurosci, 2008 Aug. PMID 18547816
    2. Structural Basis of Latrophilin-FLRT-UNC5 Interaction in Cell Adhesion. Lu YC, et al. Structure, 2015 Sep 1. PMID 26235030, Free PMC Article
    3. FLRT2 and FLRT3 act as repulsive guidance cues for Unc5-positive neurons. Yamagishi S, et al. EMBO J, 2011 Jun 14. PMID 21673655, Free PMC Article
    4. Dynamic FoxG1 expression coordinates the integration of multipolar pyramidal neuron precursors into the cortical plate. Miyoshi G, et al. Neuron, 2012 Jun 21. PMID 22726835, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables netrin receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables netrin receptor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in axon guidance IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within axon guidance ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell-cell adhesion via plasma-membrane adhesion molecules ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in netrin-activated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within pyramidal neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of neuron migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    netrin receptor UNC5D
    Names
    protein unc-5 homolog D
    unc-5 homolog D

    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_001107319.2 → NP_001100789.2  netrin receptor UNC5D precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000016
      UniProtKB/Swiss-Prot
      F1LW30
      UniProtKB/TrEMBL
      A0A0R3P9D5
      Related
      ENSRNOP00000077568.1, ENSRNOT00000111680.2
      Conserved Domains (5) summary
      cd08801
      Location:856 → 953
      Death_UNC5D; Death domain found in Uncoordinated-5D
      smart00209
      Location:253 → 304
      TSP1; Thrombospondin type 1 repeats
      pfam07679
      Location:159 → 247
      I-set; Immunoglobulin I-set domain
      pfam00791
      Location:545 → 640
      ZU5; ZU5 domain
      cl11960
      Location:161 → 247
      Ig; Immunoglobulin domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086034.1 Reference GRCr8

      Range
      69563099..70109862
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017600136.3 → XP_017455625.1  netrin receptor UNC5D isoform X2

      UniProtKB/TrEMBL
      A0A0R3P9D5

    2. XM_017600138.3 → XP_017455627.1  netrin receptor UNC5D isoform X5

      UniProtKB/TrEMBL
      A0A0R3P9D5

    3. XM_039094549.2 → XP_038950477.1  netrin receptor UNC5D isoform X7

      UniProtKB/TrEMBL
      A0A0R3P9D5
      Conserved Domains (6) summary
      cd08801
      Location:784 → 881
      Death_UNC5D; Death domain found in Uncoordinated-5D
      smart00209
      Location:253 → 301
      TSP1; Thrombospondin type 1 repeats
      pfam00791
      Location:474 → 570
      ZU5; ZU5 domain
      pfam17217
      Location:618 → 757
      UPA; UPA domain
      cd00096
      Location:165 → 169
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:161 → 247
      Ig; Immunoglobulin domain

    4. XM_017600135.3 → XP_017455624.1  netrin receptor UNC5D isoform X1

      UniProtKB/TrEMBL
      A0A0G2KA37, A0A0R3P9D5
      Related
      ENSRNOP00000075244.2, ENSRNOT00000085659.3

    5. XM_017600137.3 → XP_017455626.1  netrin receptor UNC5D isoform X4

      UniProtKB/TrEMBL
      A0A0R3P9D5

    6. XM_039094548.2 → XP_038950476.1  netrin receptor UNC5D isoform X3

      UniProtKB/TrEMBL
      A0A0R3P9D5
      Related
      ENSRNOP00000100052.1, ENSRNOT00000125236.1
      Conserved Domains (6) summary
      cd08801
      Location:840 → 937
      Death_UNC5D; Death domain found in Uncoordinated-5D
      smart00209
      Location:253 → 304
      TSP1; Thrombospondin type 1 repeats
      pfam00791
      Location:530 → 626
      ZU5; ZU5 domain
      pfam17217
      Location:674 → 813
      UPA; UPA domain
      cd00096
      Location:165 → 169
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:161 → 247
      Ig; Immunoglobulin domain

    7. XM_017600139.3 → XP_017455628.1  netrin receptor UNC5D isoform X6

      UniProtKB/TrEMBL
      A0A0R3P9D5
      Related
      ENSRNOP00000104754.1, ENSRNOT00000123536.1

    8. XM_017600140.3 → XP_017455629.1  netrin receptor UNC5D isoform X8

      UniProtKB/TrEMBL
      A0A0R3P9D5
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    F1LW30.4 GenPept UniProtKB/Swiss-Prot:F1LW30

    Gene LinkOut

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

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