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    SEMA3D semaphorin 3D [ Gallus gallus (chicken) ]

    Gene ID: 396332, updated on 3-Dec-2024

    Summary

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    Official Symbol
    SEMA3Dprovided by CGNC
    Official Full Name
    semaphorin 3Dprovided by CGNC
    Primary source
    CGNC:4949
    See related
    Ensembl:ENSGALG00010005457
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Gallus gallus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Galloanserae; Galliformes; Phasianidae; Phasianinae; Gallus
    Also known as
    COLL2; collapsin; semaphorin-3D
    Orthologs
    human mouse all
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    Genomic context

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    See SEMA3D in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    106 current bGalGal1.mat.broiler.GRCg7b (GCF_016699485.2) 1 NC_052532.1 (8899181..9041982)
    106 current bGalGal1.pat.whiteleghornlayer.GRCg7w (GCF_016700215.2) 1 NC_052573.1 (9017672..9160545)

    Chromosome 1 - NC_052532.1Genomic Context describing neighboring genes Neighboring gene glutamate metabotropic receptor 3 Neighboring gene uncharacterized LOC112532768 Neighboring gene uncharacterized LOC121107435 Neighboring gene uncharacterized LOC112532981 Neighboring gene semaphorin 3A

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Sema3D and Sema7A have distinct expression patterns in chick embryonic development. Bao ZZ, et al. Dev Dyn, 2006 Aug. PMID 16804892, Free PMC Article
    2. Sema3D, Sema3F, and Sema5A are expressed in overlapping and distinct patterns in chick embryonic heart. Jin Z, et al. Dev Dyn, 2006 Jan. PMID 16261621, Free PMC Article
    3. Collapsin: a protein in brain that induces the collapse and paralysis of neuronal growth cones. Luo Y, et al. Cell, 1993 Oct 22. PMID 8402908
    4. A family of molecules related to collapsin in the embryonic chick nervous system. Luo Y, et al. Neuron, 1995 Jun. PMID 7605628
    5. Secreted chick semaphorins bind recombinant neuropilin with similar affinities but bind different subsets of neurons in situ. Feiner L, et al. Neuron, 1997 Sep. PMID 9331347

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Expressed in the tips of the embryonic ventricular trabeculae.
      Title: Sema3D, Sema3F, and Sema5A are expressed in overlapping and distinct patterns in chick embryonic heart.
    2. Sema3D expression is limited to neural crest cells migrating out of the midbrain/hindbrain regions, while Sema7A expression is widespread in both cranial and trunk neural crest cells
      Title: Sema3D and Sema7A have distinct expression patterns in chick embryonic development.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables chemorepellent activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables semaphorin receptor binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in axon guidance IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in negative chemotaxis IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in negative regulation of axon extension involved in axon guidance IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in neural crest cell migration IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in positive regulation of cell migration IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in semaphorin-plexin signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in extracellular space IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    semaphorin-3D
    Names
    COLL-2
    collapsin-2
    sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D

    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_205373.2 → NP_990704.2  semaphorin-3D precursor

      Status: PROVISIONAL

      Source sequence(s)
      JAENSK010000011
      UniProtKB/TrEMBL
      A0A8V0XLM3, A0A8V0XRQ3
      Related
      ENSGALP00010007593.1, ENSGALT00010013031.1
      Conserved Domains (2) summary
      cd11252
      Location:49 → 522
      Sema_3D; The Sema domain, a protein interacting module, of semaphorin 3D (Sema3D)
      smart00423
      Location:521 → 558
      PSI; domain found in Plexins, Semaphorins and Integrins

    RefSeqs of Annotated Genomes: Gallus gallus Annotation Release 106 details...Open this link in a new tab

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

    Reference bGalGal1.mat.broiler.GRCg7b Primary Assembly

    Genomic

    1. NC_052532.1 Reference bGalGal1.mat.broiler.GRCg7b Primary Assembly

      Range
      8899181..9041982
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_040668203.2 → XP_040524137.1  semaphorin-3D isoform X1

      UniProtKB/TrEMBL
      A0A8V0XLM3, A0A8V0XRQ3
      Related
      ENSGALP00010007590.1, ENSGALT00010013028.1
      Conserved Domains (2) summary
      cd11252
      Location:49 → 522
      Sema_3D; The Sema domain, a protein interacting module, of semaphorin 3D (Sema3D)
      smart00423
      Location:521 → 558
      PSI; domain found in Plexins, Semaphorins and Integrins

    2. XM_015295302.4 → XP_015150788.2  semaphorin-3D isoform X1

      UniProtKB/TrEMBL
      A0A8V0XLM3, A0A8V0XRQ3
      Related
      ENSGALP00010007592.1, ENSGALT00010013030.1
      Conserved Domains (2) summary
      cd11252
      Location:49 → 522
      Sema_3D; The Sema domain, a protein interacting module, of semaphorin 3D (Sema3D)
      smart00423
      Location:521 → 558
      PSI; domain found in Plexins, Semaphorins and Integrins

    3. XM_015295369.4 → XP_015150855.2  semaphorin-3D isoform X1

      UniProtKB/TrEMBL
      A0A8V0XLM3, A0A8V0XRQ3
      Related
      ENSGALP00010007586.1, ENSGALT00010013024.1
      Conserved Domains (2) summary
      cd11252
      Location:49 → 522
      Sema_3D; The Sema domain, a protein interacting module, of semaphorin 3D (Sema3D)
      smart00423
      Location:521 → 558
      PSI; domain found in Plexins, Semaphorins and Integrins

    4. XM_046921810.1 → XP_046777766.1  semaphorin-3D isoform X2

      UniProtKB/TrEMBL
      A0A8V0XLM3

    Alternate bGalGal1.pat.whiteleghornlayer.GRCg7w

    Genomic

    1. NC_052573.1 Alternate bGalGal1.pat.whiteleghornlayer.GRCg7w

      Range
      9017672..9160545
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_046906923.1 → XP_046762879.1  semaphorin-3D isoform X1

      UniProtKB/Swiss-Prot
      Q90663
      UniProtKB/TrEMBL
      A0A8V0XLM3

    2. XM_046906921.1 → XP_046762877.1  semaphorin-3D isoform X1

      UniProtKB/Swiss-Prot
      Q90663
      UniProtKB/TrEMBL
      A0A8V0XLM3

    3. XM_046906922.1 → XP_046762878.1  semaphorin-3D isoform X1

      UniProtKB/Swiss-Prot
      Q90663
      UniProtKB/TrEMBL
      A0A8V0XLM3

    4. XM_046906925.1 → XP_046762881.1  semaphorin-3D isoform X2

      UniProtKB/TrEMBL
      A0A8V0XLM3

    5. XM_046906924.1 → XP_046762880.1  semaphorin-3D isoform X1

      UniProtKB/Swiss-Prot
      Q90663
      UniProtKB/TrEMBL
      A0A8V0XLM3

    6. XM_046906926.1 → XP_046762882.1  semaphorin-3D isoform X3

      UniProtKB/TrEMBL
      A0A8V0XU82

    7. XM_046906927.1 → XP_046762883.1  semaphorin-3D isoform X3

      UniProtKB/TrEMBL
      A0A8V0XU82
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q90663.1 GenPept UniProtKB/Swiss-Prot:Q90663

    Gene LinkOut

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