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    Astn1 astrotactin 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 304900, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Astn1provided by RGD
    Official Full Name
    astrotactin 1provided by RGD
    Primary source
    RGD:727799
    See related
    EnsemblRapid:ENSRNOG00000005667 AllianceGenome:RGD:727799
    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 act upstream of or within locomotory behavior; neuron cell-cell adhesion; and neuron migration. Predicted to be located in endosome and external side of plasma membrane. Orthologous to human ASTN1 (astrotactin 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 252.7), Adrenal (RPKM 18.4) and 2 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Astn1 in Genome Data Viewer
    Location:
    13q22
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (73070754..73388902)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (70537423..70855440)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (76054965..76370674)

    Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120096293 Neighboring gene large ribosomal subunit protein eL28-like Neighboring gene BMP/retinoic acid inducible neural specific 2 Neighboring gene uncharacterized LOC134481520 Neighboring gene microRNA 488 Neighboring gene pappalysin 2 Neighboring gene cell division cycle associated 4, pseudogene 1 Neighboring gene COP1, E3 ubiquitin ligase Neighboring gene microRNA 1843b

    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. Mice that lack astrotactin have slowed neuronal migration. Adams NC, et al. Development, 2002 Feb. PMID 11861479
    2. CNS gene encoding astrotactin, which supports neuronal migration along glial fibers. Zheng C, et al. Science, 1996 Apr 19. PMID 8602532
    3. Astrotactin provides a receptor system for CNS neuronal migration. Fishell G, et al. Development, 1991 Nov. PMID 1821847
    4. Seven cDNAs enriched following hippocampal lesion: possible roles in neuronal responses to injury. Price M, et al. Brain Res Mol Brain Res, 2003 Sep 10. PMID 14499481
    5. Characterization of biological pathways associated with a 1.37 Mbp genomic region protective of hypertension in Dahl S rats. Cowley AW Jr, et al. Physiol Genomics, 2014 Jun 1. PMID 24714719, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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 RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within cell migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within cell-cell adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within locomotory behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in neuron cell-cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within neuron cell-cell adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in neuron migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within neuron migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in external side of plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    astrotactin-1
    Names
    synaptogenesis-related mRNA sequence 1

    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_001170603.2 → NP_001164074.1  astrotactin-1 isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      Related
      ENSRNOP00000079236.2, ENSRNOT00000007660.10
      Conserved Domains (2) summary
      smart00457
      Location:804 → 991
      MACPF; membrane-attack complex / perforin
      pfam14670
      Location:652 → 699
      FXa_inhibition; Coagulation Factor Xa inhibitory site

    2. NM_001430009.1 → NP_001416938.1  astrotactin-1 isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      A0A8I5ZN05, A6ID38

    3. NM_001430010.1 → NP_001416939.1  astrotactin-1 isoform 3 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013

    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_086031.1 Reference GRCr8

      Range
      73070754..73388902
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039090767.2 → XP_038946695.1  astrotactin-1 isoform X1

      Conserved Domains (3) summary
      smart00457
      Location:812 → 999
      MACPF; membrane-attack complex / perforin
      pfam14670
      Location:660 → 707
      FXa_inhibition; Coagulation Factor Xa inhibitory site
      pfam18411
      Location:1153 → 1245
      Annexin_like; Annexin-like domain

    2. XM_039090768.2 → XP_038946696.1  astrotactin-1 isoform X2

      Conserved Domains (3) summary
      smart00457
      Location:787 → 974
      MACPF; membrane-attack complex / perforin
      pfam14670
      Location:635 → 682
      FXa_inhibition; Coagulation Factor Xa inhibitory site
      pfam18411
      Location:1128 → 1220
      Annexin_like; Annexin-like domain

    3. XM_039090769.2 → XP_038946697.1  astrotactin-1 isoform X3

      Related
      ENSRNOP00000110569.1, ENSRNOT00000172522.1
      Conserved Domains (3) summary
      smart00457
      Location:779 → 966
      MACPF; membrane-attack complex / perforin
      pfam14670
      Location:627 → 674
      FXa_inhibition; Coagulation Factor Xa inhibitory site
      pfam18411
      Location:1120 → 1212
      Annexin_like; Annexin-like domain

    4. XM_039090770.2 → XP_038946698.1  astrotactin-1 isoform X4

      Conserved Domains (3) summary
      smart00457
      Location:656 → 843
      MACPF; membrane-attack complex / perforin
      pfam14670
      Location:504 → 551
      FXa_inhibition; Coagulation Factor Xa inhibitory site
      pfam18411
      Location:997 → 1089
      Annexin_like; Annexin-like domain
    Nucleotide Protein Strain
    Heading Accession and Version

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