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Aliases for TRIM71 Gene

Aliases for TRIM71 Gene

  • Tripartite Motif Containing 71 2 3 5
  • Tripartite Motif Containing 71, E3 Ubiquitin Protein Ligase 2 3
  • RING-Type E3 Ubiquitin Transferase TRIM71 3 4
  • Tripartite Motif-Containing Protein 71 3 4
  • Protein Lin-41 Homolog 3 4
  • LIN41 3 4
  • E3 Ubiquitin-Protein Ligase TRIM71 3
  • Abnormal Cell LINeage LIN-41 3
  • Homolog Of C. Elegans Lin-41 3
  • EC 2.3.2.27 4
  • LIN-41 3

External Ids for TRIM71 Gene

Previous GeneCards Identifiers for TRIM71 Gene

  • GC03P032836
  • GC03P032795

Summaries for TRIM71 Gene

Entrez Gene Summary for TRIM71 Gene

  • The protein encoded by this gene is an E3 ubiquitin-protein ligase that binds with miRNAs and maintains the growth and upkeep of embryonic stem cells. This gene also is involved in the G1-S phase transition of the cell cycle. [provided by RefSeq, Dec 2015]

GeneCards Summary for TRIM71 Gene

TRIM71 (Tripartite Motif Containing 71) is a Protein Coding gene. Among its related pathways are Mesodermal Commitment Pathway and Innate Immune System. Gene Ontology (GO) annotations related to this gene include ligase activity and miRNA binding. An important paralog of this gene is TRIM2.

UniProtKB/Swiss-Prot for TRIM71 Gene

  • E3 ubiquitin-protein ligase that cooperates with the microRNAs (miRNAs) machinery and promotes embryonic stem cells proliferation and maintenance (Probable). Binds to miRNAs and associates with AGO2, participating in post-transcriptional repression of transcripts such as CDKN1A (By similarity). In addition, participates in post-transcriptional mRNA repression in a miRNA independent mechanism (PubMed:23125361). Facilitates the G1-S transition to promote rapid embryonic stem cell self-renewal by repressing CDKN1A expression. Required to maintain proliferation and prevent premature differentiation of neural progenitor cells during early neural development: positively regulates FGF signaling by controlling the stability of SHCBP1 (By similarity). Specific regulator of miRNA biogenesis. Binds to miRNA MIR29A hairpin and postranscriptionally modulates MIR29A levels, which indirectly regulates TET proteins expression (PubMed:28431233).

Additional gene information for TRIM71 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRIM71 Gene

Genomics for TRIM71 Gene

GeneHancer (GH) Regulatory Elements for TRIM71 Gene

Promoters and enhancers for TRIM71 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03I032814 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 550.8 +0.7 708 9.3 ELF3 ARID4B SIN3A BMI1 DMAP1 ZNF48 ZSCAN9 RARA ETS1 ZNF335 LOC105377021 TRIM71 PIR32571 GC03M032797
GH03I032778 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 13.4 -37.2 -37187 4.1 HDGF FOXA2 ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 E2F8 ZNF143 RPL23AP43 TRIM71 SUGT1P2 CNOT10-AS1 CNOT10
GH03I032684 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 9.5 -132.3 -132313 3.3 HDGF PKNOX1 SMAD1 ARNT ARID4B SIN3A DMAP1 YY1 POLR2B E2F8 CNOT10 GLB1 TMPPE UBP1 DYNC1LI1 RPL31P18 CMTM6 ENSG00000236732 TRIM71 PIR58788
GH03I032835 Enhancer 1.3 Ensembl ENCODE dbSUPER 12.8 +22.3 22321 10.4 PKNOX1 FOXA2 MLX ARID4B SIN3A DMAP1 ZNF48 RUNX3 SP5 PPARG TRIM71 SUGT1P2 CNOT10-AS1 CNOT10 DYNC1LI1 PIR32571 GC03M032797
GH03I032847 Enhancer 0.9 ENCODE 12.5 +32.0 31980 5.3 HDAC1 ELF3 PKNOX1 ATF1 ARID4B ZBTB40 CHAMP1 TCF12 GATA2 EGR1 TRIM71 CNOT10 PDCD6IP TMPPE GLB1 PIR32571 GC03M032797
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TRIM71 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TRIM71 gene promoter:

Genomic Locations for TRIM71 Gene

Genomic Locations for TRIM71 Gene
chr3:32,818,018-32,897,826
(GRCh38/hg38)
Size:
79,809 bases
Orientation:
Plus strand
chr3:32,859,510-32,939,318
(GRCh37/hg19)

Genomic View for TRIM71 Gene

Genes around TRIM71 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRIM71 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRIM71 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRIM71 Gene

Proteins for TRIM71 Gene

  • Protein details for TRIM71 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q2Q1W2-LIN41_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase TRIM71
    Protein Accession:
    Q2Q1W2

    Protein attributes for TRIM71 Gene

    Size:
    868 amino acids
    Molecular mass:
    93385 Da
    Quaternary structure:
    • Interacts (via NHL repeats) with AGO2; the interaction increases in presence of RNA (PubMed:23125361). Interacts with HSP90AA1. Interacts (via NHL repeats) with MOV10, PABPC1, PUM1, PUM2, STAU2, XRN1 and XRN2 in an RNA-dependent manner (PubMed:23125361). Interacts with SHCBP1; leading to enhance its stability (By similarity).

neXtProt entry for TRIM71 Gene

Post-translational modifications for TRIM71 Gene

Other Protein References for TRIM71 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TRIM71 Gene

Domains & Families for TRIM71 Gene

Gene Families for TRIM71 Gene

Suggested Antigen Peptide Sequences for TRIM71 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q2Q1W2

UniProtKB/Swiss-Prot:

LIN41_HUMAN :
  • The NHL domain, containing the 6 NHL repeats, is necessary and sufficient to target RNA but not to repress mRNA. The minimal region needed to execute repression consists of the coiled coil domain and the Filamin repeat. The RING-type domain is dispensable for mRNA repression.
  • Belongs to the TRIM/RBCC family.
Domain:
  • The NHL domain, containing the 6 NHL repeats, is necessary and sufficient to target RNA but not to repress mRNA. The minimal region needed to execute repression consists of the coiled coil domain and the Filamin repeat. The RING-type domain is dispensable for mRNA repression.
Family:
  • Belongs to the TRIM/RBCC family.
genes like me logo Genes that share domains with TRIM71: view

Function for TRIM71 Gene

Molecular function for TRIM71 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.
UniProtKB/Swiss-Prot Function:
E3 ubiquitin-protein ligase that cooperates with the microRNAs (miRNAs) machinery and promotes embryonic stem cells proliferation and maintenance (Probable). Binds to miRNAs and associates with AGO2, participating in post-transcriptional repression of transcripts such as CDKN1A (By similarity). In addition, participates in post-transcriptional mRNA repression in a miRNA independent mechanism (PubMed:23125361). Facilitates the G1-S transition to promote rapid embryonic stem cell self-renewal by repressing CDKN1A expression. Required to maintain proliferation and prevent premature differentiation of neural progenitor cells during early neural development: positively regulates FGF signaling by controlling the stability of SHCBP1 (By similarity). Specific regulator of miRNA biogenesis. Binds to miRNA MIR29A hairpin and postranscriptionally modulates MIR29A levels, which indirectly regulates TET proteins expression (PubMed:28431233).
UniProtKB/Swiss-Prot Induction:
Negatively regulated by the microRNA (miRNA) let-7 which causes degradation of the mRNA encoding this protein. This requires a let-7 complementary site (LCS) in the 3-UTR of the mRNA encoding this protein (PubMed:17890240, PubMed:24239284). Down-regulated by retinoic acid in Tera-2 cells (PubMed:15722555).

Enzyme Numbers (IUBMB) for TRIM71 Gene

Phenotypes From GWAS Catalog for TRIM71 Gene

Gene Ontology (GO) - Molecular Function for TRIM71 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0004842 ubiquitin-protein transferase activity ISS,IEA --
GO:0005515 protein binding IPI 23125361
GO:0008270 zinc ion binding IEA --
GO:0016740 transferase activity IEA --
genes like me logo Genes that share ontologies with TRIM71: view
genes like me logo Genes that share phenotypes with TRIM71: view

Animal Models for TRIM71 Gene

MGI Knock Outs for TRIM71:

Animal Model Products

miRNA for TRIM71 Gene

miRTarBase miRNAs that target TRIM71

Clone Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TRIM71 Gene

Localization for TRIM71 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRIM71 Gene

Cytoplasm, P-body.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TRIM71 gene
Compartment Confidence
nucleus 3
cytosol 3
plasma membrane 2
cytoskeleton 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Actin filaments (2)
  • Focal adhesion sites (2)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TRIM71 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000932 P-body ISS --
GO:0005622 intracellular IEA --
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with TRIM71: view

Pathways & Interactions for TRIM71 Gene

genes like me logo Genes that share pathways with TRIM71: view

UniProtKB/Swiss-Prot Q2Q1W2-LIN41_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for TRIM71 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000082 G1/S transition of mitotic cell cycle ISS --
GO:0001843 neural tube closure IEA --
GO:0007275 multicellular organism development IEA --
GO:0008543 fibroblast growth factor receptor signaling pathway ISS,IEA --
GO:0010586 miRNA metabolic process ISS,IEA --
genes like me logo Genes that share ontologies with TRIM71: view

No data available for SIGNOR curated interactions for TRIM71 Gene

Drugs & Compounds for TRIM71 Gene

No Compound Related Data Available

Transcripts for TRIM71 Gene

mRNA/cDNA for TRIM71 Gene

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

Unigene Clusters for TRIM71 Gene

Tripartite motif containing 71, E3 ubiquitin protein ligase:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM71 Gene

No ASD Table

Relevant External Links for TRIM71 Gene

GeneLoc Exon Structure for
TRIM71
ECgene alternative splicing isoforms for
TRIM71

Expression for TRIM71 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TRIM71 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for TRIM71 Gene

This gene is overexpressed in Testis (x18.2).

Protein differential expression in normal tissues from HIPED for TRIM71 Gene

This gene is overexpressed in Fetal ovary (16.7), Pancreatic juice (15.2), Liver (14.4), and Testis (12.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TRIM71 Gene



Protein tissue co-expression partners for TRIM71 Gene

NURSA nuclear receptor signaling pathways regulating expression of TRIM71 Gene:

TRIM71

SOURCE GeneReport for Unigene cluster for TRIM71 Gene:

Hs.567678

mRNA Expression by UniProt/SwissProt for TRIM71 Gene:

Q2Q1W2-LIN41_HUMAN
Tissue specificity: Specifically expressed in testis.
genes like me logo Genes that share expression patterns with TRIM71: view

No data available for Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRIM71 Gene

Orthologs for TRIM71 Gene

This gene was present in the common ancestor of animals.

Orthologs for TRIM71 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRIM71 33 34
  • 99.7 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia TRIM71 34
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TRIM71 33 34
  • 89.89 (n)
cow
(Bos Taurus)
Mammalia TRIM71 33 34
  • 88.4 (n)
rat
(Rattus norvegicus)
Mammalia Trim71 33
  • 85.85 (n)
mouse
(Mus musculus)
Mammalia Trim71 33 16 34
  • 84.91 (n)
oppossum
(Monodelphis domestica)
Mammalia TRIM71 34
  • 78 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRIM71 33 34
  • 78.73 (n)
lizard
(Anolis carolinensis)
Reptilia TRIM71 34
  • 79 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100486898 33
  • 72.6 (n)
Str.10679 33
zebrafish
(Danio rerio)
Actinopterygii trim71 33 34
  • 66.38 (n)
sbcb205 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.6954 33
fruit fly
(Drosophila melanogaster)
Insecta wech 33 34
  • 50.69 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005125 33
  • 48.86 (n)
worm
(Caenorhabditis elegans)
Secernentea lin-41 33 34
  • 46.31 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 19 (a)
OneToMany
Species where no ortholog for TRIM71 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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 TRIM71 Gene

ENSEMBL:
Gene Tree for TRIM71 (if available)
TreeFam:
Gene Tree for TRIM71 (if available)

Paralogs for TRIM71 Gene

Paralogs for TRIM71 Gene

(1) SIMAP similar genes for TRIM71 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with TRIM71: view

Variants for TRIM71 Gene

Sequence variations from dbSNP and Humsavar for TRIM71 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
rs1000037958 -- 32,844,147(+) A/G intron_variant
rs1000041102 -- 32,894,545(+) C/G 3_prime_UTR_variant
rs1000058473 -- 32,897,459(+) A/G 3_prime_UTR_variant
rs1000085697 -- 32,824,715(+) G/T intron_variant
rs1000164411 -- 32,853,408(+) C/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for TRIM71 Gene

Variant ID Type Subtype PubMed ID
esv3595784 CNV loss 21293372
esv6047 CNV gain 19470904
nsv1003285 CNV gain 25217958
nsv822051 CNV gain 20364138
nsv998302 CNV gain 25217958

Variation tolerance for TRIM71 Gene

Residual Variation Intolerance Score: 10.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.35; 26.68% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TRIM71 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRIM71

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRIM71 Gene

Disorders for TRIM71 Gene

Additional Disease Information for TRIM71

No disorders were found for TRIM71 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRIM71 Gene

Publications for TRIM71 Gene

  1. A Compendium of RNA-Binding Proteins that Regulate MicroRNA Biogenesis. (PMID: 28431233) Treiber T … Meister G (Molecular cell 2017) 3 4 58
  2. The let-7/LIN-41 pathway regulates reprogramming to human induced pluripotent stem cells by controlling expression of prodifferentiation genes. (PMID: 24239284) Worringer KA … Yamanaka S (Cell stem cell 2014) 3 4 58
  3. The mammalian TRIM-NHL protein TRIM71/LIN-41 is a repressor of mRNA function. (PMID: 23125361) Loedige I … Filipowicz W (Nucleic acids research 2013) 3 4 58
  4. Genome-wide association and large-scale follow up identifies 16 new loci influencing lung function. (PMID: 21946350) Soler Artigas M … Tobin MD (Nature genetics 2011) 3 44 58
  5. Human TRIM71 and its nematode homologue are targets of let-7 microRNA and its zebrafish orthologue is essential for development. (PMID: 17890240) Lin YC … Li WH (Molecular biology and evolution 2007) 3 4 58

Products for TRIM71 Gene

Sources for TRIM71 Gene

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