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

Gene ID: 79727, updated on 13-Jan-2019

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
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

Genomic context

See LIN28A in Genome Data Viewer
Location:
1p36.11
Exon count:
4
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 1 NC_000001.11 (26410768..26429728)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (26737269..26756219)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene crystallin beta-gamma domain containing 2 Neighboring gene ribosomal protein L34 pseudogene 4 Neighboring gene zinc finger protein 683 Neighboring gene dehydrodolichyl diphosphate synthase subunit Neighboring gene uncharacterized LOC101928324 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 FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

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

Pathways from BioSystems

  • Cardiac Progenitor Differentiation, organism-specific biosystem (from WikiPathways)
    Cardiac Progenitor Differentiation, organism-specific biosystemFactors involved in the induction of cardiac differentiation in vitro and in vivo. This model was based on the below two review articles.
  • Developmental Biology, organism-specific biosystem (from REACTOME)
    Developmental Biology, organism-specific biosystemAs a first step towards capturing the array of processes by which a fertilized egg gives rise to the diverse tissues of the body, examples of three kinds of processes have been annotated. These are a...
  • Transcriptional regulation of pluripotent stem cells, organism-specific biosystem (from REACTOME)
    Transcriptional regulation of pluripotent stem cells, organism-specific biosystemPluripotent stem cells are undifferentiated cells posessing an abbreviated cell cycle (reviewed in Stein et al. 2012), a characteristic profile of gene expression (Rao et al. 2004, Kim et al. 2006, P...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ12457

Gene Ontology Provided by GOA

Function Evidence Code Pubs
G-quadruplex RNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
miRNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
polysome binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
sequence-specific mRNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
translation initiation factor binding IEA
Inferred from Electronic Annotation
more info
 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
RNA 3'-end processing IMP
Inferred from Mutant Phenotype
more info
PubMed 
cellular response to glucose stimulus ISS
Inferred from Sequence or Structural Similarity
more info
 
germ cell development IEA
Inferred from Electronic Annotation
more info
 
miRNA catabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of glial cell differentiation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of translation ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of TOR signaling ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of cell proliferation involved in kidney development IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cytoplasmic translation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of neuron differentiation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of production of miRNAs involved in gene silencing by miRNA ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of protein kinase B signaling ISS
Inferred from Sequence or Structural Similarity
more info
 
pre-miRNA processing IMP
Inferred from Mutant Phenotype
more info
PubMed 
somatic stem cell population maintenance TAS
Traceable Author Statement
more info
 
stem cell differentiation IEA
Inferred from Electronic Annotation
more info
 
stem cell population maintenance IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
P-body IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasmic stress granule IDA
Inferred from Direct Assay
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
nucleolus IEA
Inferred from Electronic Annotation
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
polysome IDA
Inferred from Direct Assay
more info
PubMed 
ribonucleoprotein complex IDA
Inferred from Direct Assay
more info
PubMed 
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)

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, ENST00000326279.10
    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: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p12 Primary Assembly

    Range
    26410768..26429728
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011542148.2XP_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]
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