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    LIN28A lin-28 homolog A [ Homo sapiens (human) ]

    Gene ID: 79727, updated on 9-Dec-2024

    Summary

    Official Symbol
    LIN28Aprovided by HGNC
    Official Full Name
    lin-28 homolog Aprovided by HGNC
    Primary source
    HGNC:HGNC:15986
    See related
    Ensembl:ENSG00000131914 MIM:611043; AllianceGenome:HGNC:15986
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CSDD1; LIN28; LIN-28; ZCCHC1; lin-28A
    Summary
    This gene encodes a LIN-28 family RNA-binding protein that acts as a posttranscriptional regulator of genes involved in developmental timing and self-renewal in embryonic stem cells. The encoded protein functions through direct interaction with target mRNAs and by disrupting the maturation of certain miRNAs involved in embryonic development. This protein prevents the terminal processing of the LET7 family of microRNAs which are major regulators of cellular growth and differentiation. Aberrant expression of this gene is associated with cancer progression in multiple tissues. [provided by RefSeq, Sep 2015]
    Expression
    Restricted expression toward testis (RPKM 1.6) See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See LIN28A in Genome Data Viewer
    Location:
    1p36.11
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (26410817..26429728)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (26248852..26267747)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (26737308..26756219)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:26655253-26655760 Neighboring gene crystallin beta-gamma domain containing 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 476 Neighboring gene ribosomal protein L34 pseudogene 4 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 498 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:26672818-26673571 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:26675860-26676706 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:26677922-26678120 Neighboring gene Sharpr-MPRA regulatory region 4973 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:26688162-26688861 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 499 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:26690731-26691232 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:26691233-26691732 Neighboring gene zinc finger protein 683 Neighboring gene CRISPRi-validated cis-regulatory element chr1.3775 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:26735457-26736016 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:26736017-26736574 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:26745031-26745602 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:26746747-26747317 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:26756121-26756849 Neighboring gene uncharacterized LOC124903883 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:26758031-26758567 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:26758568-26759104 Neighboring gene dehydrodolichyl diphosphate synthase subunit Neighboring gene ribosomal protein L17 pseudogene 9

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Hundreds of variants clustered in genomic loci and biological pathways affect human height.
    EBI GWAS Catalog

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ12457

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables G-quadruplex RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables miRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables pre-miRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein-RNA adaptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables sequence-specific mRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables translation initiation factor binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in RNA 3' uridylation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in RNA 3'-end processing IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in cellular response to glucose stimulus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in germ cell development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in miRNA catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in miRNA catabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of glial cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of pre-miRNA processing IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of translation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of TOR signaling ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of cell proliferation involved in kidney development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of cytoplasmic translation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of neuron differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in pre-miRNA processing IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in pre-miRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in stem cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in stem cell population maintenance IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in P-body IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasmic stress granule IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in rough endoplasmic reticulum ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    protein lin-28 homolog A
    Names
    RNA-binding protein LIN-28
    zinc finger CCHC domain-containing protein 1
    zinc finger, CCHC domain containing 1

    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_024674.6NP_078950.1  protein lin-28 homolog A

      See identical proteins and their annotated locations for NP_078950.1

      Status: REVIEWED

      Source sequence(s)
      AL513365, BC028566
      Consensus CDS
      CCDS280.1
      UniProtKB/Swiss-Prot
      Q9H9Z2
      Related
      ENSP00000363314.3, ENST00000326279.11
      Conserved Domains (2) summary
      pfam00313
      Location:42112
      CSD; 'Cold-shock' DNA-binding domain
      cl26705
      Location:120183
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      26410817..26429728
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011542148.3XP_011540450.1  protein lin-28 homolog A isoform X1

      See identical proteins and their annotated locations for XP_011540450.1

      UniProtKB/Swiss-Prot
      Q9H9Z2
      Conserved Domains (2) summary
      pfam00313
      Location:42112
      CSD; 'Cold-shock' DNA-binding domain
      cl26705
      Location:120183
      AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      26248852..26267747
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054338752.1XP_054194727.1  protein lin-28 homolog A isoform X1

      UniProtKB/Swiss-Prot
      Q9H9Z2