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    Prtg protogenin [ Mus musculus (house mouse) ]

    Gene ID: 235472, updated on 9-Dec-2024

    Summary

    Official Symbol
    Prtgprovided by MGI
    Official Full Name
    protogeninprovided by MGI
    Primary source
    MGI:MGI:2444710
    See related
    Ensembl:ENSMUSG00000036030 AllianceGenome:MGI:2444710
    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
    Igdcc5; A230098A12Rik
    Summary
    Enables identical protein binding activity and signaling receptor activity. Acts upstream of or within negative regulation of neurogenesis. Located in plasma membrane. Is expressed in several structures, including embryo ectoderm; eye; mandible primordium; primitive streak; and somite. Orthologous to human PRTG (protogenin). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in CNS E11.5 (RPKM 1.3), placenta adult (RPKM 0.8) and 12 other tissues See more
    Orthologs
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    Genomic context

    See Prtg in Genome Data Viewer
    Location:
    9 D; 9 40.08 cM
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (72714556..72824589)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (72807274..72917307)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene neural precursor cell expressed, developmentally down-regulated 4 Neighboring gene STARR-seq mESC enhancer starr_24604 Neighboring gene STARR-positive B cell enhancer ABC_E6764 Neighboring gene STARR-seq mESC enhancer starr_24610 Neighboring gene predicted gene 27204 Neighboring gene STARR-seq mESC enhancer starr_24613 Neighboring gene STARR-seq mESC enhancer starr_24614 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:72738604-72738787 Neighboring gene STARR-seq mESC enhancer starr_24618 Neighboring gene pygopus 1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:72809821-72810010 Neighboring gene dynein axonemal assembly factor 4 Neighboring gene predicted gene, 23567

    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 (3) 
    • Gene trapped (3) 
    • Targeted (1)  1 citation

    Pathways from PubChem

    General gene information

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables cell-cell adhesion mediator activity  
    enables identical protein binding PubMed 
    enables signaling receptor activity PubMed 
    Component Evidence Code Pubs
    is_active_in axon  
    is_active_in plasma membrane  
    located_in plasma membrane PubMed 

    General protein information

    Preferred Names
    protogenin
    Names
    protein Shen-Dan
    protogenin homolog (Gallus gallus)
    shen-dan

    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_175485.4NP_780694.3  protogenin precursor

      See identical proteins and their annotated locations for NP_780694.3

      Status: VALIDATED

      Source sequence(s)
      AC158997, AY630257, CT027588
      Consensus CDS
      CCDS23331.1
      UniProtKB/Swiss-Prot
      A4FUS8, A4FUS9, Q2EY15, Q2VWP8, Q8BJK6, Q8BYL5
      Related
      ENSMUSP00000055815.8, ENSMUST00000055535.9
      Conserved Domains (6) summary
      cd00096
      Location:146201
      Ig; Immunoglobulin domain
      smart00408
      Location:244303
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:135217
      IG_like; Immunoglobulin like
      cd00063
      Location:815905
      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 ...
      pfam07679
      Location:321406
      I-set; Immunoglobulin I-set domain
      cl11960
      Location:34124
      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_000075.7 Reference GRCm39 C57BL/6J

      Range
      72714556..72824589
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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