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Aliases for LIN28A Gene

Aliases for LIN28A Gene

  • Lin-28 Homolog A 2 3
  • Zinc Finger CCHC Domain-Containing Protein 1 3 4
  • Lin-28A 3 4
  • ZCCHC1 3 4
  • LIN28 3 4
  • CSDD1 3 4
  • Zinc Finger, CCHC Domain Containing 1 3
  • Lin-28 Homolog A (C. Elegans) 5
  • Lin-28 Homolog (C. Elegans) 2
  • RNA-Binding Protein LIN-28 3
  • LIN-28 3

External Ids for LIN28A Gene

Previous HGNC Symbols for LIN28A Gene

  • LIN28

Previous GeneCards Identifiers for LIN28A Gene

  • GC01P026737
  • GC01P024991

Summaries for LIN28A Gene

Entrez Gene Summary for LIN28A Gene

  • 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]

GeneCards Summary for LIN28A Gene

LIN28A (Lin-28 Homolog A) is a Protein Coding gene. Diseases associated with LIN28A include Embryonal Tumor With Multilayered Rosettes and Central Nervous System Primitive Neuroectodermal Neoplasm. Among its related pathways are Transcriptional regulation of pluripotent stem cells and Developmental Biology. GO annotations related to this gene include nucleic acid binding and mRNA binding. An important paralog of this gene is LIN28B.

UniProtKB/Swiss-Prot for LIN28A Gene

  • Translational enhancer that drives specific mRNAs to polysomes and increases the efficiency of protein synthesis. Its association with the translational machinery and target mRNAs results in an increased number of initiation events per molecule of mRNA and, indirectly, in mRNA stabilization. Binds IGF2 mRNA, MYOD1 mRNA, ARBP/36B4 ribosomal protein mRNA and its own mRNA. Essential for skeletal muscle differentiation program through the translational up-regulation of IGF2 expression (By similarity). Suppressor of microRNA (miRNA) biogenesis, including that of let-7, miR107, miR-143 and miR-200c. Specifically binds miRNA precursors (pre-miRNAs), recognizing an 5-GGAG-3 motif found in pre-miRNA terminal loop, and recruits ZCCHC11/TUT4 uridylyltransferase. This results in the terminal uridylation of target pre-miRNAs (PubMed:19703396) (PubMed:22118463) (PubMed:22898984). Uridylated pre-miRNAs fail to be processed by Dicer and undergo degradation. The repression of let-7 expression is required for normal development and contributes to maintain the pluripotent state by preventing let-7-mediated differentiation of embryonic stem cells (By similarity).

Gene Wiki entry for LIN28A Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LIN28A Gene

Genomics for LIN28A Gene

Regulatory Elements for LIN28A Gene

Enhancers for LIN28A Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around LIN28A on UCSC Golden Path with GeneCards custom track

Promoters for LIN28A Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around LIN28A on UCSC Golden Path with GeneCards custom track

Genomic Location for LIN28A Gene

Chromosome:
1
Start:
26,410,778 bp from pter
End:
26,429,728 bp from pter
Size:
18,951 bases
Orientation:
Plus strand

Genomic View for LIN28A Gene

Genes around LIN28A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LIN28A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LIN28A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LIN28A Gene

Proteins for LIN28A Gene

  • Protein details for LIN28A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H9Z2-LN28A_HUMAN
    Recommended name:
    Protein lin-28 homolog A
    Protein Accession:
    Q9H9Z2

    Protein attributes for LIN28A Gene

    Size:
    209 amino acids
    Molecular mass:
    22743 Da
    Quaternary structure:
    • Monomer. During skeletal muscle differentiation, associated with translation initiation complexes in the polysomal compartment. Directly interacts with EIF3S2. Interacts with NCL in an RNA-dependent manner (By similarity). Interacts with ZCCHC11/TUT4 in the presence of pre-let-7 RNA.
    Miscellaneous:
    • Overexpressed in primary tumors (overall frequency approximately 15%), overexpression being linked to repression of let-7 family miRNAs and derepression of let-7 targets. Facilitates cellular transformation in vitro, and overexpression is associated with advanced disease across multiple tumor types.

    Three dimensional structures from OCA and Proteopedia for LIN28A Gene

neXtProt entry for LIN28A Gene

Proteomics data for LIN28A Gene at MOPED

Post-translational modifications for LIN28A Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LIN28A Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for LIN28A (LIN28A)

No data available for DME Specific Peptides for LIN28A Gene

Domains & Families for LIN28A Gene

Gene Families for LIN28A Gene

Suggested Antigen Peptide Sequences for LIN28A Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9H9Z2

UniProtKB/Swiss-Prot:

LN28A_HUMAN :
  • The CSD domain is required for function in muscle differentiation.
  • Belongs to the lin-28 family.
  • Contains 2 CCHC-type zinc fingers.
Domain:
  • The CSD domain is required for function in muscle differentiation.
  • The CCHC zinc fingers interact with the GGAG motif at the 3 end of let-7 miRNAs precursors, more generally they bind the 5-NGNNG-3 consensus motif with micromolar affinity. The CSD domain recognizes the loop at the 5 end. The flexible linker allows accommodating variable sequences and lengths among let-7 family members.
  • Contains 1 CSD (cold-shock) domain.
Family:
  • Belongs to the lin-28 family.
Similarity:
  • Contains 2 CCHC-type zinc fingers.
genes like me logo Genes that share domains with LIN28A: view

Function for LIN28A Gene

Molecular function for LIN28A Gene

UniProtKB/Swiss-Prot Function:
Translational enhancer that drives specific mRNAs to polysomes and increases the efficiency of protein synthesis. Its association with the translational machinery and target mRNAs results in an increased number of initiation events per molecule of mRNA and, indirectly, in mRNA stabilization. Binds IGF2 mRNA, MYOD1 mRNA, ARBP/36B4 ribosomal protein mRNA and its own mRNA. Essential for skeletal muscle differentiation program through the translational up-regulation of IGF2 expression (By similarity). Suppressor of microRNA (miRNA) biogenesis, including that of let-7, miR107, miR-143 and miR-200c. Specifically binds miRNA precursors (pre-miRNAs), recognizing an 5-GGAG-3 motif found in pre-miRNA terminal loop, and recruits ZCCHC11/TUT4 uridylyltransferase. This results in the terminal uridylation of target pre-miRNAs (PubMed:19703396) (PubMed:22118463) (PubMed:22898984). Uridylated pre-miRNAs fail to be processed by Dicer and undergo degradation. The repression of let-7 expression is required for normal development and contributes to maintain the pluripotent state by preventing let-7-mediated differentiation of embryonic stem cells (By similarity).
UniProtKB/Swiss-Prot Induction:
Can be negatively regulated by the interaction of microRNAs miR-125a and miR-125b with at least two miRNA responsive elements (miREs) in the 3-UTR of this gene. These interactions may reduce both translation efficiency and mRNA abundance. Negatively regulated by retinoic acid.

Gene Ontology (GO) - Molecular Function for LIN28A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003729 mRNA binding IEA --
genes like me logo Genes that share ontologies with LIN28A: view
genes like me logo Genes that share phenotypes with LIN28A: view

Animal Models for LIN28A Gene

MGI Knock Outs for LIN28A:

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LIN28A Gene

Localization for LIN28A Gene

Subcellular locations from UniProtKB/Swiss-Prot for LIN28A Gene

Cytoplasm. Nucleus, nucleolus. Note=Predominantly cytoplasmic (PubMed:22118463). Nucleolar localization observed in 10-15% of the nuclei in differentiated myotubes (By similarity). Shuttles between the cytoplasm and the nucleus. Localizes to cytoplasmic processing bodies and stress granules. {ECO:0000250, ECO:0000269 PubMed:22118463}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LIN28A Gene COMPARTMENTS Subcellular localization image for LIN28A gene
Compartment Confidence
cytosol 5
nucleus 5
extracellular 2
golgi apparatus 1
peroxisome 1
plasma membrane 1

No data available for Gene Ontology (GO) - Cellular Components for LIN28A Gene

Pathways & Interactions for LIN28A Gene

genes like me logo Genes that share pathways with LIN28A: view

Pathways by source for LIN28A Gene

2 Cell Signaling Technology pathways for LIN28A Gene
1 BioSystems pathway for LIN28A Gene

Gene Ontology (GO) - Biological Process for LIN28A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0007281 germ cell development IEA --
GO:0010586 miRNA metabolic process IEA --
GO:0010587 miRNA catabolic process IMP 18951094
GO:0031123 RNA 3-end processing IMP 18951094
genes like me logo Genes that share ontologies with LIN28A: view

No data available for SIGNOR curated interactions for LIN28A Gene

Drugs & Compounds for LIN28A Gene

(1) Drugs for LIN28A Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Zinc Approved Pharma 2102
genes like me logo Genes that share compounds with LIN28A: view

Transcripts for LIN28A Gene

mRNA/cDNA for LIN28A Gene

(2) REFSEQ mRNAs :
(0) Additional mRNA sequences :
(65) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for LIN28A Gene

Lin-28 homolog A (C. elegans):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for LIN28A Gene

No ASD Table

Relevant External Links for LIN28A Gene

GeneLoc Exon Structure for
LIN28A
ECgene alternative splicing isoforms for
LIN28A

Expression for LIN28A Gene

mRNA expression in normal human tissues for LIN28A Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LIN28A Gene

This gene is overexpressed in Testis (x49.8).

Protein differential expression in normal tissues from HIPED for LIN28A Gene

This gene is overexpressed in Fetal ovary (50.0) and Fetal testis (19.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for LIN28A Gene



SOURCE GeneReport for Unigene cluster for LIN28A Gene Hs.86154

mRNA Expression by UniProt/SwissProt for LIN28A Gene

Q9H9Z2-LN28A_HUMAN
Tissue specificity: Expressed in embryonic stem cells, placenta and testis. Tends to be up-regulated in HER2-overexpressing breast tumors.
genes like me logo Genes that share expression patterns with LIN28A: view

Protein tissue co-expression partners for LIN28A Gene

Primer Products

Orthologs for LIN28A Gene

This gene was present in the common ancestor of animals.

Orthologs for LIN28A Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia LIN28A 35
  • 90.57 (n)
  • 95.61 (a)
-- 36
  • 92 (a)
OneToMany
-- 36
  • 96 (a)
OneToMany
dog
(Canis familiaris)
Mammalia LIN28A 35
  • 92.2 (n)
  • 97.07 (a)
LIN28A 36
  • 97 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lin28a 35
  • 91.07 (n)
  • 96.65 (a)
Lin28a 16
Lin28a 36
  • 97 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia LIN28A 35
  • 97.29 (n)
  • 96.17 (a)
LIN28A 36
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lin28a 35
  • 90.43 (n)
  • 98.09 (a)
oppossum
(Monodelphis domestica)
Mammalia LIN28A 36
  • 92 (a)
OneToOne
chicken
(Gallus gallus)
Aves LIN28A 35
  • 77.45 (n)
  • 82.59 (a)
LIN28A 36
  • 83 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LIN28A 36
  • 86 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lin28a 35
  • 68.39 (n)
  • 70.98 (a)
Str.916 35
zebrafish
(Danio rerio)
Actinopterygii -- 35
lin28a 35
  • 70 (n)
  • 75.88 (a)
CABZ01041200.1 36
  • 71 (a)
OneToMany
lin28a 36
  • 67 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta lin-28 36
  • 38 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea lin-28 36
  • 26 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 38 (a)
OneToMany
Species with no ortholog for LIN28A:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for LIN28A Gene

ENSEMBL:
Gene Tree for LIN28A (if available)
TreeFam:
Gene Tree for LIN28A (if available)

Paralogs for LIN28A Gene

Paralogs for LIN28A Gene

(1) SIMAP similar genes for LIN28A Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for LIN28A Gene

genes like me logo Genes that share paralogs with LIN28A: view

Variants for LIN28A Gene

Sequence variations from dbSNP and Humsavar for LIN28A Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1112516 -- 26,428,099(-) ACCTA(G/T)CAATC utr-variant-3-prime
rs3811463 -- 26,427,451(-) AACCT(A/G)GTCTC utr-variant-3-prime
rs3811464 -- 26,410,652(-) CGGCT(C/T)CAGCT upstream-variant-2KB
rs3841065 -- 26,410,439(-) GGGGG(-/G)TAGTT upstream-variant-2KB
rs4274112 -- 26,419,708(-) TAAAA(C/T)GGAGT intron-variant

Variation tolerance for LIN28A Gene

Residual Variation Intolerance Score: 54% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.43; 9.48% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LIN28A Gene

Human Gene Mutation Database (HGMD)
LIN28A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for LIN28A Gene

Disorders for LIN28A Gene

MalaCards: The human disease database

(6) MalaCards diseases for LIN28A Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
embryonal tumor with multilayered rosettes
  • ependymoblastoma
central nervous system primitive neuroectodermal neoplasm
  • cpnet
medulloepithelioma
  • diktyoma, malignant
ependymoblastoma
perlman syndrome
  • nephroblastomatosis - fetal ascites - macrosomia - wilms tumor
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for LIN28A

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LIN28A
genes like me logo Genes that share disorders with LIN28A: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LIN28A Gene

Publications for LIN28A Gene

  1. Conservation of the heterochronic regulator Lin-28, its developmental expression and microRNA complementary sites. (PMID: 12798299) Moss E.G. … Tang L. (Dev. Biol. 2003) 2 3 4 67
  2. Lin28 mediates the terminal uridylation of let-7 precursor MicroRNA. (PMID: 18951094) Heo I. … Kim V.N. (Mol. Cell 2008) 3 23
  3. Expression of LIN28 and its regulatory microRNAs in adult adrenocortical cancer. (PMID: 25200669) Faria A.M. … Almeida M.Q. (Clin. Endocrinol. (Oxf) 2015) 3
  4. Targeting ornithine decarboxylase reverses the LIN28/Let-7 axis and inhibits glycolytic metabolism in neuroblastoma. (PMID: 25415050) Lozier A.M. … Sholler G.S. (Oncotarget 2015) 3
  5. Overexpression of Lin28 inhibits the proliferation, migration and cell cycle progression and induces apoptosis of BGC-823 gastric cancer cells. (PMID: 25515921) Song H. … Zheng J.N. (Oncol. Rep. 2015) 3

Products for LIN28A Gene

Sources for LIN28A Gene

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