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

Gene ID: 93842, updated on 12-May-2024

Summary

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
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Genomic context

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

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

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

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables cell-cell adhesion mediator activity IDA
Inferred from Direct Assay
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

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)

NEW Try the new Transcript table

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_001145800.1NP_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:28110
    IG_like; Immunoglobulin like
    cd00063
    Location:625715
    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:436500
    Ig; Immunoglobulin domain
    pfam13927
    Location:227305
    Ig_3; Immunoglobulin domain
    cl11960
    Location:136223
    Ig; Immunoglobulin domain
  2. NM_033608.3NP_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:28110
    IG_like; Immunoglobulin like
    cd00063
    Location:625715
    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:436500
    Ig; Immunoglobulin domain
    pfam13927
    Location:227305
    Ig_3; Immunoglobulin domain
    cl11960
    Location:136223
    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_036154500.1XP_036010393.1  protein turtle homolog A isoform X2

    Conserved Domains (6) summary
    smart00409
    Location:28110
    IG; Immunoglobulin
    PHA03247
    Location:9391128
    PHA03247; large tegument protein UL36; Provisional
    cd00063
    Location:625715
    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:226305
    Ig_3; Immunoglobulin domain
    cd00096
    Location:228231
    Ig; Ig strand A [structural motif]
    cl11960
    Location:136223
    Ig; Immunoglobulin domain
  2. XM_030243785.2XP_030099645.1  protein turtle homolog A isoform X1

    UniProtKB/Swiss-Prot
    Q05BQ1, Q8R1J8, Q925P4
    Conserved Domains (5) summary
    smart00410
    Location:28110
    IG_like; Immunoglobulin like
    cd00063
    Location:625715
    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:436500
    Ig; Immunoglobulin domain
    pfam13927
    Location:227305
    Ig_3; Immunoglobulin domain
    cl11960
    Location:136223
    Ig; Immunoglobulin domain
  3. XM_006497056.5XP_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:28110
    IG_like; Immunoglobulin like
    cd00063
    Location:625715
    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:436500
    Ig; Immunoglobulin domain
    pfam13927
    Location:227305
    Ig_3; Immunoglobulin domain
    cl11960
    Location:136223
    Ig; Immunoglobulin domain
  4. XM_030243786.1XP_030099646.1  protein turtle homolog A isoform X3

    Conserved Domains (4) summary
    cd00063
    Location:562652
    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:163242
    Ig_3; Immunoglobulin domain
    cd00096
    Location:165168
    Ig; Ig strand A [structural motif]
    cl11960
    Location:73160
    Ig; Immunoglobulin domain
  5. XM_036154499.1XP_036010392.1  protein turtle homolog A isoform X2

    Conserved Domains (6) summary
    smart00409
    Location:28110
    IG; Immunoglobulin
    PHA03247
    Location:9391128
    PHA03247; large tegument protein UL36; Provisional
    cd00063
    Location:625715
    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:226305
    Ig_3; Immunoglobulin domain
    cd00096
    Location:228231
    Ig; Ig strand A [structural motif]
    cl11960
    Location:136223
    Ig; Immunoglobulin domain
  6. XM_006497057.2XP_006497120.1  protein turtle homolog A isoform X3

    Conserved Domains (4) summary
    cd00063
    Location:562652
    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:163242
    Ig_3; Immunoglobulin domain
    cd00096
    Location:165168
    Ig; Ig strand A [structural motif]
    cl11960
    Location:73160
    Ig; Immunoglobulin domain
  7. XM_036154506.1XP_036010399.1  protein turtle homolog A isoform X4

    Conserved Domains (4) summary
    cd00063
    Location:498588
    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:99178
    Ig_3; Immunoglobulin domain
    cd00096
    Location:101104
    Ig; Ig strand A [structural motif]
    cl11960
    Location:996
    Ig; Immunoglobulin domain
  8. XM_036154505.1XP_036010398.1  protein turtle homolog A isoform X3

    Conserved Domains (4) summary
    cd00063
    Location:562652
    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:163242
    Ig_3; Immunoglobulin domain
    cd00096
    Location:165168
    Ig; Ig strand A [structural motif]
    cl11960
    Location:73160
    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