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Astn1 astrotactin 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 304900, updated on 27-Nov-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, Nov 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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