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    Lin28a lin-28 homolog A [ Rattus norvegicus (Norway rat) ]

    Gene ID: 500562, updated on 19-May-2022

    Summary

    Symbol
    Lin28aprovided by RGD
    Full Name
    lin-28 homolog Aprovided by RGD
    Primary source
    RGD:1566408
    See related
    Ensembl:ENSRNOG00000069459 AllianceGenome:RGD:1566408
    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
    Also known as
    Lin28; RGD1566408
    Summary
    Predicted to enable RNA binding activity; polysome binding activity; and translation initiation factor binding activity. Predicted to be involved in several processes, including RNA metabolic process; positive regulation of intracellular signal transduction; and regulation of translation. Predicted to act upstream of or within several processes, including miRNA metabolic process; negative regulation of glial cell differentiation; and regulation of gene expression. Predicted to be located in several cellular components, including cytoplasmic ribonucleoprotein granule; nucleolus; and rough endoplasmic reticulum. Predicted to be part of polysome. Orthologous to human LIN28A (lin-28 homolog A). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 3.2), Testes (RPKM 1.9) and 9 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Lin28a in Genome Data Viewer
    Location:
    5q36
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    108 current mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (146227119..146244122, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (152230343..152247873, complement)

    Chromosome 5 - NC_051340.1Genomic Context describing neighboring genes Neighboring gene high mobility group nucleosomal binding domain 2 Neighboring gene dehydrodolichyl diphosphate synthase subunit Neighboring gene uncharacterized LOC120103002 Neighboring gene zinc finger protein 683 Neighboring gene crystallin beta-gamma domain containing 2

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables G-quadruplex RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables mRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables miRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables molecular_function ND
    No biological Data available
    more info
     
    enables polysome binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables sequence-specific mRNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables translation initiation factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in RNA 3' uridylation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in RNA 3'-end processing ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in biological_process ND
    No biological Data available
    more info
     
    involved_in cellular response to glucose stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within germ cell development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in miRNA catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within miRNA metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within negative regulation of glial cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of translation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of TOR signaling ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of cell proliferation involved in kidney development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of cytoplasmic translation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of production of miRNAs involved in gene silencing by miRNA ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of protein kinase B signaling ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of translation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within pre-miRNA processing ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in pre-miRNA processing ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of miRNA-mediated gene silencing ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in stem cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in stem cell population maintenance ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in P-body ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cellular_component ND
    No biological Data available
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasmic stress granule ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    part_of polysome ISO
    Inferred from Sequence Orthology
    more info
     
    part_of ribonucleoprotein complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in rough endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    protein lin-28 homolog A
    Names
    protein lin-28 homolog A-like

    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_001109269.1NP_001102739.1  protein lin-28 homolog A

      See identical proteins and their annotated locations for NP_001102739.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473968
      UniProtKB/TrEMBL
      D3ZZA6
      Related
      ENSRNOP00000085321.1, ENSRNOT00000100729.1
      Conserved Domains (2) summary
      COG5082
      Location:120183
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
      pfam00313
      Location:42112
      CSD; 'Cold-shock' DNA-binding domain

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

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

    Reference mRatBN7.2 Primary Assembly

    Genomic

    1. NC_051340.1 Reference mRatBN7.2 Primary Assembly

      Range
      146227119..146244122 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039110616.1XP_038966544.1  protein lin-28 homolog A isoform X1

      Conserved Domains (2) summary
      COG5082
      Location:105151
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
      cl09927
      Location:262
      S1_like; Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains ...
    2. XM_039110617.1XP_038966545.1  protein lin-28 homolog A isoform X2

      Conserved Domains (2) summary
      COG5082
      Location:75121
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
      cl09927
      Location:132
      S1_like; Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains ...