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

Gene ID: 79727, updated on 1-Mar-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
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Genomic context

See LIN28A in Genome Data Viewer
Location:
1p36.11
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (26410817..26429728)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (26248852..26267747)
105.20220307 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 miRNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables polysome binding IDA
Inferred from Direct Assay
more info
PubMed 
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)

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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_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_2023_10

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