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    Igsf9 immunoglobulin superfamily, member 9 [ Mus musculus (house mouse) ]

    Gene ID: 93842, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Igsf9provided by MGI
    Official Full Name
    immunoglobulin superfamily, member 9provided by MGI
    Primary source
    MGI:MGI:2135283
    See related
    Ensembl:ENSMUSG00000037995 AllianceGenome:MGI:2135283
    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
    NRT1; Dasm1; Ncaml; 644ETD8; mKIAA1355; Kiaa1355-hp
    Summary
    Enables cell-cell adhesion mediator activity. Acts upstream of or within dendrite development; homophilic cell adhesion via plasma membrane adhesion molecules; and regulation of synapse organization. Located in axon; dendrite; and inhibitory synapse. Is expressed in several structures, including alimentary system; central nervous system; limb; sensory organ; and urinary system. Orthologous to human IGSF9 (immunoglobulin superfamily member 9). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in duodenum adult (RPKM 132.1), small intestine adult (RPKM 112.2) and 10 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Igsf9 in Genome Data Viewer
    Location:
    1 H3; 1 79.86 cM
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (172307616..172326444)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (172481573..172498877)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene ribosomal protein SA pseudogene Neighboring gene SLAM family member 9 Neighboring gene STARR-positive B cell enhancer ABC_E4391 Neighboring gene transgelin 2 Neighboring gene STARR-positive B cell enhancer ABC_E2587 Neighboring gene STARR-positive B cell enhancer ABC_E9066 Neighboring gene STARR-seq mESC enhancer starr_03067 Neighboring gene STARR-positive B cell enhancer ABC_E7779 Neighboring gene cilia and flagella associated protein 45 Neighboring gene STARR-positive B cell enhancer mm9_chr1:174458799-174459099 Neighboring gene RIKEN cDNA 4933439K11 gene Neighboring gene STARR-seq mESC enhancer starr_03068

    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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    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. MRCKbeta links Dasm1 to actin rearrangements to promote dendrite development.
      Title: MRCKβ links Dasm1 to actin rearrangements to promote dendrite development.
    2. These results provide genetic evidence for a specific role of IgSF9 in inhibitory synapse development/maintenance, presumably by its cell adhesion molecule-like activity.
      Title: Genetic evidence for the adhesion protein IgSF9/Dasm1 to regulate inhibitory synapse development independent of its intracellular domain.
    3. dendrite arborization phenotype was caused by off-target effects and that Dasm-1 is dispensable for hippocampal dendrite arborization
      Title: The protein dendrite arborization and synapse maturation 1 (Dasm-1) is dispensable for dendrite arborization.
    4. Review. Dasm1, a protein likely to function as a neuronal cell-surface receptor, plays an important role in both shaping the dendritic tree and affecting the fraction of electrically active glutamatergic synapses.
      Title: Dasm1: a receptor that shapes neuronal dendrites and turns on silent synapses?
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Gene trapped (1) 
    • Targeted (2)  1 citation

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables cell-cell adhesion mediator activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell-cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within dendrite development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within homophilic cell adhesion via plasma membrane adhesion molecules IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of synapse maturation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of synapse organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in axon IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in dendrite IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in inhibitory synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in postsynaptic density membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protein turtle homolog A
    Names
    NCAM-like protein NRT1
    dendrite arborization and synapse maturation protein 1
    igSF9A
    immunoglobulin superfamily member 9A

    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_001145800.1 → NP_001139272.1  protein turtle homolog A precursor

      See identical proteins and their annotated locations for NP_001139272.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants encode the same protein.
      Source sequence(s)
      AC121551, BC040281
      Consensus CDS
      CCDS15515.1
      UniProtKB/Swiss-Prot
      Q05BQ1, Q8R1J8, Q925P4
      Related
      ENSMUSP00000058275.7, ENSMUST00000052629.13
      Conserved Domains (5) summary
      smart00410
      Location:28 → 110
      IG_like; Immunoglobulin like
      cd00063
      Location:625 → 715
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd00096
      Location:436 → 500
      Ig; Immunoglobulin domain
      pfam13927
      Location:227 → 305
      Ig_3; Immunoglobulin domain
      cl11960
      Location:136 → 223
      Ig; Immunoglobulin domain

    2. NM_033608.3 → NP_291086.2  protein turtle homolog A precursor

      See identical proteins and their annotated locations for NP_291086.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Both variants encode the same protein.
      Source sequence(s)
      AC121551, BC040281
      Consensus CDS
      CCDS15515.1
      UniProtKB/Swiss-Prot
      Q05BQ1, Q8R1J8, Q925P4
      Related
      ENSMUSP00000106866.3, ENSMUST00000111235.8
      Conserved Domains (5) summary
      smart00410
      Location:28 → 110
      IG_like; Immunoglobulin like
      cd00063
      Location:625 → 715
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd00096
      Location:436 → 500
      Ig; Immunoglobulin domain
      pfam13927
      Location:227 → 305
      Ig_3; Immunoglobulin domain
      cl11960
      Location:136 → 223
      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_000067.7 Reference GRCm39 C57BL/6J

      Range
      172307616..172326444
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036154500.1 → XP_036010393.1  protein turtle homolog A isoform X2

      Conserved Domains (6) summary
      smart00409
      Location:28 → 110
      IG; Immunoglobulin
      PHA03247
      Location:939 → 1128
      PHA03247; large tegument protein UL36; Provisional
      cd00063
      Location:625 → 715
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam13927
      Location:226 → 305
      Ig_3; Immunoglobulin domain
      cd00096
      Location:228 → 231
      Ig; Ig strand A [structural motif]
      cl11960
      Location:136 → 223
      Ig; Immunoglobulin domain

    2. XM_030243785.2 → XP_030099645.1  protein turtle homolog A isoform X1

      UniProtKB/Swiss-Prot
      Q05BQ1, Q8R1J8, Q925P4
      Conserved Domains (5) summary
      smart00410
      Location:28 → 110
      IG_like; Immunoglobulin like
      cd00063
      Location:625 → 715
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd00096
      Location:436 → 500
      Ig; Immunoglobulin domain
      pfam13927
      Location:227 → 305
      Ig_3; Immunoglobulin domain
      cl11960
      Location:136 → 223
      Ig; Immunoglobulin domain

    3. XM_006497056.5 → XP_006497119.1  protein turtle homolog A isoform X1

      See identical proteins and their annotated locations for XP_006497119.1

      UniProtKB/Swiss-Prot
      Q05BQ1, Q8R1J8, Q925P4
      Conserved Domains (5) summary
      smart00410
      Location:28 → 110
      IG_like; Immunoglobulin like
      cd00063
      Location:625 → 715
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd00096
      Location:436 → 500
      Ig; Immunoglobulin domain
      pfam13927
      Location:227 → 305
      Ig_3; Immunoglobulin domain
      cl11960
      Location:136 → 223
      Ig; Immunoglobulin domain

    4. XM_030243786.1 → XP_030099646.1  protein turtle homolog A isoform X3

      Conserved Domains (4) summary
      cd00063
      Location:562 → 652
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam13927
      Location:163 → 242
      Ig_3; Immunoglobulin domain
      cd00096
      Location:165 → 168
      Ig; Ig strand A [structural motif]
      cl11960
      Location:73 → 160
      Ig; Immunoglobulin domain

    5. XM_036154499.1 → XP_036010392.1  protein turtle homolog A isoform X2

      Conserved Domains (6) summary
      smart00409
      Location:28 → 110
      IG; Immunoglobulin
      PHA03247
      Location:939 → 1128
      PHA03247; large tegument protein UL36; Provisional
      cd00063
      Location:625 → 715
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam13927
      Location:226 → 305
      Ig_3; Immunoglobulin domain
      cd00096
      Location:228 → 231
      Ig; Ig strand A [structural motif]
      cl11960
      Location:136 → 223
      Ig; Immunoglobulin domain

    6. XM_006497057.2 → XP_006497120.1  protein turtle homolog A isoform X3

      Conserved Domains (4) summary
      cd00063
      Location:562 → 652
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam13927
      Location:163 → 242
      Ig_3; Immunoglobulin domain
      cd00096
      Location:165 → 168
      Ig; Ig strand A [structural motif]
      cl11960
      Location:73 → 160
      Ig; Immunoglobulin domain

    7. XM_036154506.1 → XP_036010399.1  protein turtle homolog A isoform X4

      Conserved Domains (4) summary
      cd00063
      Location:498 → 588
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam13927
      Location:99 → 178
      Ig_3; Immunoglobulin domain
      cd00096
      Location:101 → 104
      Ig; Ig strand A [structural motif]
      cl11960
      Location:9 → 96
      Ig; Immunoglobulin domain

    8. XM_036154505.1 → XP_036010398.1  protein turtle homolog A isoform X3

      Conserved Domains (4) summary
      cd00063
      Location:562 → 652
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam13927
      Location:163 → 242
      Ig_3; Immunoglobulin domain
      cd00096
      Location:165 → 168
      Ig; Ig strand A [structural motif]
      cl11960
      Location:73 → 160
      Ig; Immunoglobulin domain

    RNA

    1. XR_004935294.1 RNA Sequence

    2. XR_004935295.1 RNA Sequence

    3. XR_004935292.1 RNA Sequence

    4. XR_004935291.1 RNA Sequence

      Related
      ENSMUST00000127482.8

    5. XR_004935296.1 RNA Sequence

    6. XR_004935293.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q05BQ1.2 GenPept UniProtKB/Swiss-Prot:Q05BQ1

    Gene LinkOut

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

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