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    Siglec5 sialic acid binding Ig-like lectin 5 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 292843, updated on 29-Feb-2024

    Summary

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    Official Symbol
    Siglec5provided by RGD
    Official Full Name
    sialic acid binding Ig-like lectin 5provided by RGD
    Primary source
    RGD:1305432
    See related
    Ensembl:ENSRNOG00000021474 AllianceGenome:RGD:1305432
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable monosaccharide binding activity and sialic acid binding activity. Predicted to be involved in cell adhesion and regulation of endocytosis. Predicted to be located in cytosol and lysosome. Predicted to be active in plasma membrane. Orthologous to several human genes including SIGLEC6 (sialic acid binding Ig like lectin 6). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 103.1), Lung (RPKM 37.9) and 8 other tissues See more
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    Genomic context

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    See Siglec5 in Genome Data Viewer
    Location:
    1q22
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (102904705..102913281)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (93768190..93776696)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (98562351..98570992, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene interferon stimulated exonuclease gene 20 like 1 Neighboring gene zinc finger protein 715 Neighboring gene sialic acid binding Ig-like lectin 10 Neighboring gene uncharacterized LOC102550061 Neighboring gene similar to human chromosome 19 open reading frame 84

    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
    • 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. Distinct endocytic mechanisms of CD22 (Siglec-2) and Siglec-F reflect roles in cell signaling and innate immunity. Tateno H, et al. Mol Cell Biol, 2007 Aug. PMID 17562860, Free PMC Article
    2. The murine inhibitory receptor mSiglec-E is expressed broadly on cells of the innate immune system whereas mSiglec-F is restricted to eosinophils. Zhang JQ, et al. Eur J Immunol, 2004 Apr. PMID 15048729
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables sialic acid binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    sialic acid-binding Ig-like lectin 5

    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_001106249.2 → NP_001099719.2  sialic acid-binding Ig-like lectin 5 precursor

      See identical proteins and their annotated locations for NP_001099719.2

      Status: PROVISIONAL

      Source sequence(s)
      CH473979
      UniProtKB/TrEMBL
      A0A8I6AAM7, A6JAH1
      Related
      ENSRNOP00000088341.1, ENSRNOT00000106528.1
      Conserved Domains (3) summary
      smart00408
      Location:257 → 315
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:252 → 325
      IG_like; Immunoglobulin like
      cl11960
      Location:20 → 133
      Ig; Immunoglobulin domain

    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_086019.1 Reference GRCr8

      Range
      102904705..102913281
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006228946.5 → XP_006229008.1  sialic acid-binding Ig-like lectin 5 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AAM7, D3Z9T4
      Related
      ENSRNOP00000034882.4
      Conserved Domains (3) summary
      smart00408
      Location:257 → 315
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:252 → 325
      IG_like; Immunoglobulin like
      cl11960
      Location:20 → 133
      Ig; Immunoglobulin domain

    2. XM_039104606.2 → XP_038960534.1  sialic acid-binding Ig-like lectin 5 isoform X2

      Conserved Domains (3) summary
      smart00410
      Location:252 → 325
      IG_like; Immunoglobulin like
      cd00096
      Location:20 → 24
      Ig; Ig strand A [structural motif]
      cl11960
      Location:20 → 133
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version

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