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    Unc5d unc-5 netrin receptor D [ Mus musculus (house mouse) ]

    Gene ID: 210801, updated on 12-May-2024

    Summary

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    Official Symbol
    Unc5dprovided by MGI
    Official Full Name
    unc-5 netrin receptor Dprovided by MGI
    Primary source
    MGI:MGI:2389364
    See related
    Ensembl:ENSMUSG00000063626 AllianceGenome:MGI:2389364
    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
    Unc5h4; mKIAA1777; D930029E11Rik
    Summary
    Predicted to enable netrin receptor activity. Acts upstream of or within axon guidance; pyramidal neuron differentiation; and regulation of neuron migration. Located in cell surface. Is expressed in several structures, including brain; integumental system; jaw; limb; and sensory organ. Orthologous to human UNC5D (unc-5 netrin receptor D). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in CNS E18 (RPKM 4.0), cortex adult (RPKM 3.1) and 6 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Unc5d in Genome Data Viewer
    Location:
    8 A2- A3; 8 16.47 cM
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (29136745..29709698, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (28646717..29219671, complement)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_21056 Neighboring gene testis expressed gene 24 pseudogene Neighboring gene STARR-seq mESC enhancer starr_21057 Neighboring gene STARR-seq mESC enhancer starr_21058 Neighboring gene STARR-seq mESC enhancer starr_21059 Neighboring gene predicted gene, 26795 Neighboring gene predicted gene, 32505 Neighboring gene STARR-seq mESC enhancer starr_21060 Neighboring gene STARR-seq mESC enhancer starr_21061 Neighboring gene STARR-seq mESC enhancer starr_21062 Neighboring gene STARR-seq mESC enhancer starr_21063 Neighboring gene STARR-seq mESC enhancer starr_21064 Neighboring gene STARR-seq mESC enhancer starr_21065 Neighboring gene predicted gene, 32567 Neighboring gene nuclear distribution gene C homolog (Aspergillus), pseudogene 1

    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. Drebrin-like (Dbnl) Controls Neuronal Migration via Regulating N-Cadherin Expression in the Developing Cerebral Cortex. Inoue S, et al. J Neurosci, 2019 Jan 23. PMID 30504273, Free PMC Article
    2. A Prdm8 target gene Ebf3 regulates multipolar-to-bipolar transition in migrating neocortical cells. Iwai R, et al. Biochem Biophys Res Commun, 2018 Jan 1. PMID 29113800
    3. Dependence receptor UNC5D mediates nerve growth factor depletion-induced neuroblastoma regression. Zhu Y, et al. J Clin Invest, 2013 Jul. PMID 23778138, Free PMC Article
    4. Unc5B interacts with FLRT3 and Rnd1 to modulate cell adhesion in Xenopus embryos. Karaulanov E, et al. PLoS One, 2009 May 29. PMID 19492039, Free PMC Article
    5. Super-complexes of adhesion GPCRs and neural guidance receptors. Jackson VA, et al. Nat Commun, 2016 Apr 19. PMID 27091502, Free PMC Article

    See all (61) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Data show that Unc5 cell guidance receptor Unc5D controls Latrophilin3 (LPHN3)-FLRT protein FLRT2-mediated cell adhesion.
      Title: Super-complexes of adhesion GPCRs and neural guidance receptors.
    2. Unc5d is primarily expressed by layer 4 cells in the primary sensory areas of the developing neocortex and may mediate the effect of netrin-4 on cortical cell survival in a lamina-specific manner.
      Title: Laminar and areal expression of unc5d and its role in cortical cell survival.
    3. UNC5D protein and nuclear RNA is localized in the multipolar cells of the subventricular zone throughout cortical development.
      Title: 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.
    4. Unc5h4 was cloned; its expression is in the developing limb and mammary gland in developing mouse
      Title: Cloning of three mouse Unc5 genes and their expression patterns at mid-gestation.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA1777

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables netrin receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within axon guidance IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in cell-cell adhesion via plasma-membrane adhesion molecules ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in netrin-activated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within pyramidal neuron differentiation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of neuron migration IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cell surface IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in membrane IEA
    Inferred from Electronic Annotation
    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 4
    protein unc-5 homolog D
    unc5 homolog 4

    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_001347498.1 → NP_001334427.1  netrin receptor UNC5D isoform 2 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks three in-frame exons in the 5' coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC127329, AC132947, AC163090
      Consensus CDS
      CCDS85521.1
      UniProtKB/TrEMBL
      A6H5Z5, B7ZMT3
      Related
      ENSMUSP00000147306.2, ENSMUST00000211448.2

    2. NM_001347499.1 → NP_001334428.1  netrin receptor UNC5D isoform 3 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks one in-frame exon and uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
      Source sequence(s)
      AC127329, AC132947, AC163090
      Consensus CDS
      CCDS85524.1
      UniProtKB/TrEMBL
      B7ZMT3, C5IAW8
      Related
      ENSMUSP00000147721.2, ENSMUST00000210785.2

    3. NM_001347500.1 → NP_001334429.1  netrin receptor UNC5D isoform 4 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks two in-frame exons and uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The encoded isoform (4) is shorter than isoform 1.
      Source sequence(s)
      AC127329, AC132947, AC163090
      Consensus CDS
      CCDS85523.1
      UniProtKB/TrEMBL
      A0A1B0GSR6, B7ZMT3
      Related
      ENSMUSP00000148043.2, ENSMUST00000209401.2

    4. NM_001347501.1 → NP_001334430.1  netrin receptor UNC5D isoform 5 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) lacks two in-frame exons in the 5' coding region and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The encoded isoform (5) is shorter than isoform 1.
      Source sequence(s)
      AC127329, AC132947, AC163090
      Consensus CDS
      CCDS85522.1
      UniProtKB/TrEMBL
      B7ZMT2, B7ZMT3
      Related
      ENSMUSP00000148236.2, ENSMUST00000210298.2

    5. NM_153135.3 → NP_694775.1  netrin receptor UNC5D isoform 1 precursor

      See identical proteins and their annotated locations for NP_694775.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC127329, AC163090, AJ487854
      Consensus CDS
      CCDS40314.1
      UniProtKB/Swiss-Prot
      B9EHC0, Q8K1S2
      UniProtKB/TrEMBL
      B7ZMT3
      Related
      ENSMUSP00000128521.3, ENSMUST00000168630.4
      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_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_000074.7 Reference GRCm39 C57BL/6J

      Range
      29136745..29709698 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006509054.5 → XP_006509117.1  netrin receptor UNC5D isoform X5

      UniProtKB/TrEMBL
      B7ZMT3
      Conserved Domains (5) summary
      cd08801
      Location:836 → 933
      Death_UNC5D; Death domain found in Uncoordinated-5D
      smart00209
      Location:253 → 304
      TSP1; Thrombospondin type 1 repeats
      pfam00791
      Location:546 → 642
      ZU5; ZU5 domain
      pfam17217
      Location:690 → 809
      UPA; UPA domain
      cl11960
      Location:161 → 247
      Ig; Immunoglobulin domain

    2. XM_006509051.5 → XP_006509114.1  netrin receptor UNC5D isoform X3

      UniProtKB/TrEMBL
      B7ZMT3
      Conserved Domains (5) summary
      cd08801
      Location:843 → 940
      Death_UNC5D; Death domain found in Uncoordinated-5D
      smart00209
      Location:253 → 304
      TSP1; Thrombospondin type 1 repeats
      pfam00791
      Location:533 → 629
      ZU5; ZU5 domain
      pfam17217
      Location:677 → 816
      UPA; UPA domain
      cl11960
      Location:161 → 247
      Ig; Immunoglobulin domain

    3. XM_006509055.5 → XP_006509118.1  netrin receptor UNC5D isoform X6

      UniProtKB/TrEMBL
      B7ZMT3
      Conserved Domains (5) summary
      cd08801
      Location:800 → 897
      Death_UNC5D; Death domain found in Uncoordinated-5D
      smart00209
      Location:253 → 301
      TSP1; Thrombospondin type 1 repeats
      pfam00791
      Location:490 → 586
      ZU5; ZU5 domain
      pfam17217
      Location:634 → 773
      UPA; UPA domain
      cl11960
      Location:161 → 247
      Ig; Immunoglobulin domain

    4. XM_006509052.5 → XP_006509115.1  netrin receptor UNC5D isoform X4

      UniProtKB/TrEMBL
      B7ZMT3
      Conserved Domains (5) 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
      cl11960
      Location:161 → 247
      Ig; Immunoglobulin domain

    5. XM_006509050.5 → XP_006509113.1  netrin receptor UNC5D isoform X2

      UniProtKB/TrEMBL
      B7ZMT3
      Conserved Domains (5) summary
      cd08801
      Location:845 → 942
      Death_UNC5D; Death domain found in Uncoordinated-5D
      smart00209
      Location:253 → 304
      TSP1; Thrombospondin type 1 repeats
      pfam00791
      Location:535 → 631
      ZU5; ZU5 domain
      pfam17217
      Location:679 → 818
      UPA; UPA domain
      cl11960
      Location:161 → 247
      Ig; Immunoglobulin domain

    6. XM_006509049.5 → XP_006509112.1  netrin receptor UNC5D isoform X1

      UniProtKB/TrEMBL
      B7ZMT3
      Conserved Domains (5) summary
      cd08801
      Location:851 → 948
      Death_UNC5D; Death domain found in Uncoordinated-5D
      smart00209
      Location:253 → 304
      TSP1; Thrombospondin type 1 repeats
      pfam00791
      Location:541 → 637
      ZU5; ZU5 domain
      pfam17217
      Location:685 → 824
      UPA; UPA domain
      cl11960
      Location:161 → 247
      Ig; Immunoglobulin domain

    7. XM_036153853.1 → XP_036009746.1  netrin receptor UNC5D isoform X7

      UniProtKB/TrEMBL
      B7ZMT3
      Conserved Domains (6) summary
      cd08801
      Location:795 → 892
      Death_UNC5D; Death domain found in Uncoordinated-5D
      smart00209
      Location:253 → 301
      TSP1; Thrombospondin type 1 repeats
      pfam00791
      Location:485 → 581
      ZU5; ZU5 domain
      pfam17217
      Location:629 → 768
      UPA; UPA domain
      cd00096
      Location:165 → 169
      Ig; Ig strand A' [structural motif]
      cl11960
      Location:161 → 247
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8K1S2.1 GenPept UniProtKB/Swiss-Prot:Q8K1S2

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