Aliases for TRMT9B Gene

Aliases for TRMT9B Gene

  • TRNA Methyltransferase 9B (Putative) 2 3 5
  • KIAA1456 2 3 4
  • TRM9L 2 3 4
  • Probable TRNA Methyltransferase 9-Like Protein 3 4
  • Probable TRNA Methyltransferase 9B 3 4
  • C8orf79 3 4
  • HTRM9L 2 3
  • Chromosome 8 Open Reading Frame 79 2
  • EC 2.1.1.- 4
  • FLJ36980 2
  • TRMT9B 5

External Ids for TRMT9B Gene

Previous HGNC Symbols for TRMT9B Gene

  • C8orf79
  • KIAA1456

Summaries for TRMT9B Gene

GeneCards Summary for TRMT9B Gene

TRMT9B (TRNA Methyltransferase 9B (Putative)) is a Protein Coding gene. Diseases associated with TRMT9B include Dissociative Amnesia and Laryngotracheitis. Among its related pathways are tRNA processing and Gene Expression. An important paralog of this gene is ALKBH8.

UniProtKB/Swiss-Prot Summary for TRMT9B Gene

  • May modifie wobble uridines in specific arginine and glutamic acid tRNAs. Acts as a tumor suppressor by promoting the expression of LIN9.

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TRMT9B Gene

Genomics for TRMT9B Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for TRMT9B Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TRMT9B on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TRMT9B

Genomic Locations for TRMT9B Gene

Latest Assembly
chr8:12,945,642-13,031,503
(GRCh38/hg38)
Size:
85,862 bases
Orientation:
Plus strand

Previous Assembly
chr8:12,803,182-12,887,286
(GRCh37/hg19 by Entrez Gene)
Size:
84,105 bases
Orientation:
Plus strand

chr8:12,803,151-12,889,012
(GRCh37/hg19 by Ensembl)
Size:
85,862 bases
Orientation:
Plus strand

Alternative Locations (GRCh38/hg38)

  • chr8(PATCHES):6,141,094-6,225,206 (+)

Genomic View for TRMT9B Gene

Genes around TRMT9B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRMT9B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRMT9B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRMT9B Gene

Proteins for TRMT9B Gene

  • Protein details for TRMT9B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9P272-TRM9B_HUMAN
    Recommended name:
    Probable tRNA methyltransferase 9B
    Protein Accession:
    Q9P272
    Secondary Accessions:
    • K7EM26
    • Q8N9K7
    • Q96AW6

    Protein attributes for TRMT9B Gene

    Size:
    454 amino acids
    Molecular mass:
    51299 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC04326.1; Type=Erroneous translation; Note=Wrong choice of frame.; Evidence={ECO:0000305};

    Alternative splice isoforms for TRMT9B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRMT9B Gene

Post-translational modifications for TRMT9B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for TRMT9B Gene

Domains & Families for TRMT9B Gene

Gene Families for TRMT9B Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for TRMT9B Gene

Suggested Antigen Peptide Sequences for TRMT9B Gene

GenScript: Design optimal peptide antigens:
  • Putative methyltransferase KIAA1456 (K1456_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9P272

UniProtKB/Swiss-Prot:

TRM9B_HUMAN :
  • Belongs to the methyltransferase superfamily.
Family:
  • Belongs to the methyltransferase superfamily.
genes like me logo Genes that share domains with TRMT9B: view

Function for TRMT9B Gene

Molecular function for TRMT9B Gene

UniProtKB/Swiss-Prot Function:
May modifie wobble uridines in specific arginine and glutamic acid tRNAs. Acts as a tumor suppressor by promoting the expression of LIN9.

Enzyme Numbers (IUBMB) for TRMT9B Gene

Phenotypes From GWAS Catalog for TRMT9B Gene

Gene Ontology (GO) - Molecular Function for TRMT9B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000049 tRNA binding IBA 21873635
GO:0008168 methyltransferase activity IEA --
GO:0008175 tRNA methyltransferase activity EXP 23381944
GO:0016300 tRNA (uracil) methyltransferase activity IEA --
GO:0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors IBA --
genes like me logo Genes that share ontologies with TRMT9B: view
genes like me logo Genes that share phenotypes with TRMT9B: view

miRNA for TRMT9B Gene

miRTarBase miRNAs that target TRMT9B

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRMT9B Gene

Localization for TRMT9B Gene

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 TRMT9B gene
Compartment Confidence
nucleus 3
mitochondrion 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TRMT9B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA 21873635
GO:0005737 cytoplasm TAS --
genes like me logo Genes that share ontologies with TRMT9B: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for TRMT9B Gene

Pathways & Interactions for TRMT9B Gene

PathCards logo

SuperPathways for TRMT9B Gene

genes like me logo Genes that share pathways with TRMT9B: view

Pathways by source for TRMT9B Gene

Gene Ontology (GO) - Biological Process for TRMT9B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002098 tRNA wobble uridine modification IEA,IBA 21873635
GO:0006400 tRNA modification TAS --
GO:0008033 tRNA processing IEA --
GO:0030488 tRNA methylation IEA --
GO:0032259 methylation IEA --
genes like me logo Genes that share ontologies with TRMT9B: view

No data available for SIGNOR curated interactions for TRMT9B Gene

Drugs & Compounds for TRMT9B Gene

No Compound Related Data Available

Transcripts for TRMT9B Gene

mRNA/cDNA for TRMT9B Gene

2 REFSEQ mRNAs :
11 NCBI additional mRNA sequence :
9 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Alternative Splicing Database (ASD) splice patterns (SP) for TRMT9B Gene

No ASD Table

Relevant External Links for TRMT9B Gene

GeneLoc Exon Structure for
TRMT9B

Expression for TRMT9B Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for TRMT9B

mRNA Expression by UniProt/SwissProt for TRMT9B Gene:

Q9P272-TRM9B_HUMAN
Tissue specificity: Down-regulated in breast, bladder, colorectal, cervix and testicular carcinomas.

Evidence on tissue expression from TISSUES for TRMT9B Gene

  • Nervous system(4.5)
  • Eye(4)
genes like me logo Genes that share expression patterns with TRMT9B: view

Primer products for research

No data available for mRNA expression in normal human tissues , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRMT9B Gene

Orthologs for TRMT9B Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for TRMT9B Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia KIAA1456 29 30
  • 98.53 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia KIAA1456 29 30
  • 86.39 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia KIAA1456 29 30
  • 82.63 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia 6430573F11Rik 29 30
  • 79.34 (n)
OneToOne
Trmt9b 16
Rat
(Rattus norvegicus)
Mammalia RGD1304810 29
  • 78.85 (n)
Oppossum
(Monodelphis domestica)
Mammalia KIAA1456 30
  • 49 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia KIAA1456 30
  • 46 (a)
OneToOne
Chicken
(Gallus gallus)
Aves KIAA1456 29 30
  • 66.44 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia KIAA1456 30
  • 46 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia LOC100488302 29
  • 62.36 (n)
Zebrafish
(Danio rerio)
Actinopterygii zgc:73340 30
  • 40 (a)
OneToOne
Fruit Fly
(Drosophila melanogaster)
Insecta CG42261 30
  • 9 (a)
OneToOne
Worm
(Caenorhabditis elegans)
Secernentea C35D10.12 30
  • 27 (a)
OneToOne
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes TRM9 30
  • 32 (a)
OneToMany
Species where no ortholog for TRMT9B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • 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)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • 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 TRMT9B Gene

ENSEMBL:
Gene Tree for TRMT9B (if available)
TreeFam:
Gene Tree for TRMT9B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TRMT9B: view image
Alliance of Genome Resources:
Additional Orthologs for TRMT9B

Paralogs for TRMT9B Gene

Paralogs for TRMT9B Gene

genes like me logo Genes that share paralogs with TRMT9B: view

Variants for TRMT9B Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for TRMT9B Gene

SNP ID Clinical significance and condition Chr 08 pos Variation AA Info Type
rs34995506 -- p.His337Leu
rs3739308 -- p.Ile265Thr
rs3739310 -- p.Cys207Gly
rs502882 -- p.Gly304Glu
rs505480 -- p.Pro219Thr

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for TRMT9B Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for TRMT9B Gene

Variant ID Type Subtype PubMed ID
dgv7083n100 CNV loss 25217958
dgv7084n100 CNV gain 25217958
esv2759594 CNV loss 17122850
esv3576525 CNV gain 25503493
esv3616295 CNV gain 21293372
nsv1017762 CNV loss 25217958
nsv1026381 CNV loss 25217958
nsv1030002 CNV loss 25217958
nsv1033244 CNV loss 25217958
nsv465469 CNV loss 19166990
nsv610406 CNV gain 21841781
nsv610409 CNV loss 21841781

Variation tolerance for TRMT9B Gene

Residual Variation Intolerance Score: 92.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.86; 58.89% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TRMT9B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRMT9B
Leiden Open Variation Database (LOVD)
TRMT9B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRMT9B Gene

Disorders for TRMT9B Gene

MalaCards: The human disease database

(3) MalaCards diseases for TRMT9B Gene - From: COP

Disorder Aliases PubMed IDs
dissociative amnesia
  • psychogenic amnesia
laryngotracheitis
kartagener syndrome
  • kartagener's syndrome
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for TRMT9B

genes like me logo Genes that share disorders with TRMT9B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TRMT9B Gene

Publications for TRMT9B Gene

  1. A human tRNA methyltransferase 9-like protein prevents tumour growth by regulating LIN9 and HIF1-α. (PMID: 23381944) Begley U … Begley T (EMBO molecular medicine 2013) 2 3 4
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  4. Prediction of the coding sequences of unidentified human genes. XVII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10819331) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 2000) 3 4
  5. Genome-wide CRISPR screen identifies HNRNPL as a prostate cancer dependency regulating RNA splicing. (PMID: 28611215) Fei T … Brown M (Proceedings of the National Academy of Sciences of the United States of America 2017) 3

Products for TRMT9B Gene

Sources for TRMT9B Gene