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

Gene ID: 93842, updated on 26-Sep-2022

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, Apr 2022]
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
109 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 predicted gene, 35522 Neighboring gene ribosomal protein SA pseudogene Neighboring gene SLAM family member 9 Neighboring gene transgelin 2 Neighboring gene cilia and flagella associated protein 45 Neighboring gene RIKEN cDNA 4933439K11 gene

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. Dasm1: a receptor that shapes neuronal dendrites and turns on silent synapses? Falls DL. Sci STKE, 2005 Mar 8. PMID 15755926
  2. MRCKβ links Dasm1 to actin rearrangements to promote dendrite development. Wang XX, et al. J Biol Chem, 2021 Jan-Jun. PMID 33933448, Free PMC Article
  3. Control of dendrite arborization by an Ig family member, dendrite arborization and synapse maturation 1 (Dasm1). Shi SH, et al. Proc Natl Acad Sci U S A, 2004 Sep 7. PMID 15340157, Free PMC Article
  4. Cloning and characterization of Igsf9 in mouse and human: a new member of the immunoglobulin superfamily expressed in the developing nervous system. Doudney K, et al. Genomics, 2002 May. PMID 11991715
  5. Genetic evidence for the adhesion protein IgSF9/Dasm1 to regulate inhibitory synapse development independent of its intracellular domain. Mishra A, et al. J Neurosci, 2014 Mar 19. PMID 24647940, Free PMC Article

See all (24) citations in PubMed

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)
  • Gene trapped (1) 
  • Targeted (2)  1 citation
  • Endonuclease-mediated (2) 

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
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in cell-cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
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 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within nervous system development 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 inhibitory synapse 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
  
located_in synapse 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, 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, 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: Mus musculus Annotation Release 109 details...Open this link in a new tab

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
    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, 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

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