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    CD5 CD5 molecule [ Sus scrofa (pig) ]

    Gene ID: 100513336, updated on 17-Aug-2024

    Summary

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    Official Symbol
    CD5provided by VGNC
    Official Full Name
    CD5 moleculeprovided by VGNC
    Primary source
    VGNC:VGNC:86420
    See related
    Ensembl:ENSSSCG00000013115
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Sus scrofa
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
    Expression
    Biased expression in spleen (RPKM 23.7), lung (RPKM 6.2) and 3 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See CD5 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    106 current Sscrofa11.1 (GCF_000003025.6) 2 NC_010444.4 (10648973..10673479, complement)
    105 previous assembly Sscrofa10.2 (GCF_000003025.5) 2 NC_010444.3 (10251315..10262364, complement)

    Chromosome 2 - NC_010444.4Genomic Context describing neighboring genes Neighboring gene pregnancy-associated glycoprotein 2-like Neighboring gene VPS37C subunit of ESCRT-I Neighboring gene uncharacterized LOC110259252 Neighboring gene CD6 molecule Neighboring gene solute carrier family 15 member 3 Neighboring gene transmembrane protein 132A

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome data used for gene annotation Transcriptome data used for gene annotation
    • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
    • BioProject: PRJNA311523
    • Publication: PMID 27646534
    • Analysis date: Thu Dec 14 17:10:49 2017

    Bibliography

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    Related articles in PubMed

    1. PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10 147 porcine full-length cDNA sequences. Uenishi H, et al. Nucleic Acids Res, 2007 Jan. PMID 17145712, Free PMC Article
    2. PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries. Uenishi H, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681463, Free PMC Article
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Process Evidence Code Pubs
    involved_in T cell costimulation IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    T-cell surface glycoprotein CD5

    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_001244800.1 → NP_001231729.1  T-cell surface glycoprotein CD5 precursor

      Status: VALIDATED

      Source sequence(s)
      AK239283, BP158390, BP164768, BW973480
      UniProtKB/TrEMBL
      A0A480STM9
      Related
      ENSSSCP00000013949.4, ENSSSCT00000014335.5
      Conserved Domains (2) summary
      smart00202
      Location:37 → 137
      SR; Scavenger receptor Cys-rich
      pfam00530
      Location:42 → 130
      SRCR; Scavenger receptor cysteine-rich domain

    RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference Sscrofa11.1 Primary Assembly

    Genomic

    1. NC_010444.4 Reference Sscrofa11.1 Primary Assembly

      Range
      10648973..10673479 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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