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Lin28a lin-28 homolog A [ Mus musculus (house mouse) ]

Gene ID: 83557, updated on 24-Jun-2024

Summary

Official Symbol
Lin28aprovided by MGI
Official Full Name
lin-28 homolog Aprovided by MGI
Primary source
MGI:MGI:1890546
See related
Ensembl:ENSMUSG00000050966 AllianceGenome:MGI:1890546
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Lin28; Tex17; Lin-28; Gm10299; lin-28A
Summary
Enables RNA binding activity and translation initiation factor binding activity. Involved in several processes, including RNA metabolic process; positive regulation of intracellular signal transduction; and regulation of gene expression. Acts upstream of or within several processes, including miRNA metabolic process; negative regulation of glial cell differentiation; and regulation of gene expression. Located in nucleolus and rough endoplasmic reticulum. Is expressed in several structures, including early conceptus; embryo ectoderm; gonad; limb primordium; and tooth. Used to study nephroblastoma. Orthologous to human LIN28A (lin-28 homolog A). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in placenta adult (RPKM 6.6), CNS E11.5 (RPKM 1.5) and 4 other tissues See more
Orthologs
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Genomic context

See Lin28a in Genome Data Viewer
Location:
4; 4 D2.3
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (133730641..133746504, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (134003330..134019196, complement)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E6230 Neighboring gene high mobility group nucleosomal binding domain 2 Neighboring gene dehydrodolichyl diphosphate synthase Neighboring gene STARR-positive B cell enhancer ABC_E9085 Neighboring gene STARR-seq mESC enhancer starr_11665 Neighboring gene zinc finger protein 683 Neighboring gene crystallin beta-gamma domain containing 2 Neighboring gene STARR-positive B cell enhancer ABC_E1658

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables G-quadruplex RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA binding ISO
Inferred from Sequence Orthology
more info
 
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables mRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables mRNA binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables miRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
 
enables pre-miRNA binding ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein-RNA adaptor activity ISO
Inferred from Sequence Orthology
more info
 
enables sequence-specific mRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables translation initiation factor binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in RNA 3' uridylation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in RNA 3'-end processing ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to glucose stimulus IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within germ cell development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within germ cell development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in miRNA catabolic process IDA
Inferred from Direct Assay
more info
PubMed 
involved_in miRNA catabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in miRNA catabolic process ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within miRNA metabolic process IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within negative regulation of glial cell differentiation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of pre-miRNA processing ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of translation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of TOR signaling IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of cell proliferation involved in kidney development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cytoplasmic translation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of neuron differentiation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of translation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in pre-miRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within pre-miRNA processing IDA
Inferred from Direct Assay
more info
PubMed 
involved_in pre-miRNA processing IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in pre-miRNA processing ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within regulation of miRNA-mediated gene silencing IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within regulatory ncRNA-mediated gene silencing IEA
Inferred from Electronic Annotation
more info
 
involved_in stem cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
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 cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
PubMed 
located_in cytoplasmic stress granule ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
located_in nucleolus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in rough endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
protein lin-28 homolog A
Names
RNA-binding protein LIN-28
testis expressed gene 17
testis-expressed protein 17

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_145833.1NP_665832.1  protein lin-28 homolog A

    See identical proteins and their annotated locations for NP_665832.1

    Status: PROVISIONAL

    Source sequence(s)
    AF521097
    Consensus CDS
    CCDS18761.1
    UniProtKB/Swiss-Prot
    Q6NV62, Q8K3Y3
    Related
    ENSMUSP00000050488.3, ENSMUST00000051674.3
    Conserved Domains (1) summary
    cd04458
    Location:42111
    CSP_CDS; Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. ...

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    133730641..133746504 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011250361.4XP_011248663.1  protein lin-28 homolog A isoform X2

    Conserved Domains (2) summary
    COG5082
    Location:70133
    AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
    cd04458
    Location:261
    CSP_CDS; Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. ...
  2. XM_006539317.4XP_006539380.1  protein lin-28 homolog A isoform X1

    Conserved Domains (2) summary
    COG5082
    Location:104167
    AIR1; Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
    cl09927
    Location:6096
    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 ...