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    Focad focadhesin [ Rattus norvegicus (Norway rat) ]

    Gene ID: 313346, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Focadprovided by RGD
    Official Full Name
    focadhesinprovided by RGD
    Primary source
    RGD:1311849
    See related
    EnsemblRapid:ENSRNOG00000024402 AllianceGenome:RGD:1311849
    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
    Also known as
    Ir22; RGD1311849
    Summary
    Predicted to be involved in regulation of post-transcriptional gene silencing. Predicted to be located in focal adhesion. Orthologous to human FOCAD (focadhesin). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 101.0), Muscle (RPKM 96.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Focad in Genome Data Viewer
    Location:
    5q32
    Exon count:
    48
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (107610489..107932485)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (102564560..102886587)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (106409411..106729308)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108350995 Neighboring gene MLLT3, super elongation complex subunit Neighboring gene small nucleolar RNA SNORA17 Neighboring gene 3-hydroxyacyl-CoA dehydratase 4 Neighboring gene interferon beta 1

    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 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. Identification of transcriptionally regulated genes in response to cellular iron availability in rat hippocampus. Liu M, et al. Mol Cell Biochem, 2007 Jun. PMID 17186380
    2. KIAA1797/FOCAD encodes a novel focal adhesion protein with tumour suppressor function in gliomas. Brockschmidt A, et al. Brain, 2012 Apr. PMID 22427331

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in regulation of post-transcriptional gene silencing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in focal adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    focadhesin

    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_001427695.1 → NP_001414624.1  focadhesin

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      F1LU27
      Related
      ENSRNOP00000055189.3, ENSRNOT00000058387.6

    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_086023.1 Reference GRCr8

      Range
      107610489..107932485
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039111093.2 → XP_038967021.1  focadhesin isoform X1

      UniProtKB/TrEMBL
      A0A8I6AQM8
      Related
      ENSRNOP00000104359.1, ENSRNOT00000173561.1
      Conserved Domains (2) summary
      pfam11229
      Location:1113 → 1701
      Focadhesin
      pfam12530
      Location:393 → 617
      DUF3730; Protein of unknown function (DUF3730)

    2. XM_017593754.3 → XP_017449243.1  focadhesin isoform X1

      UniProtKB/TrEMBL
      A0A8I6AQM8
      Conserved Domains (2) summary
      pfam11229
      Location:1113 → 1701
      Focadhesin
      pfam12530
      Location:393 → 617
      DUF3730; Protein of unknown function (DUF3730)

    3. XM_063287636.1 → XP_063143706.1  focadhesin isoform X2

    4. XM_039111095.2 → XP_038967023.1  focadhesin isoform X3

      Conserved Domains (2) summary
      pfam11229
      Location:717 → 1305
      Focadhesin
      pfam12530
      Location:1 → 221
      DUF3730; Protein of unknown function (DUF3730)
    Nucleotide Protein Strain
    Heading Accession and Version

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