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Aliases for TRMO Gene

Aliases for TRMO Gene

  • TRNA Methyltransferase O 2 3 4 5
  • C9orf156 3 4
  • Nef (Lentivirus Myristoylated Factor) Associated Protein 1 3
  • TRNA (Adenine(37)-N6)-Methyltransferase 3
  • Chromosome 9 Open Reading Frame 156 2
  • Nef Associated Protein 1 3
  • Nef-Associated Protein 1 3
  • Thioesterase NAP1 3
  • EC 2.1.1.- 4
  • HSPC219 3
  • NAP1 3

External Ids for TRMO Gene

Previous HGNC Symbols for TRMO Gene

  • C9orf156

Summaries for TRMO Gene

GeneCards Summary for TRMO Gene

TRMO (TRNA Methyltransferase O) is a Protein Coding gene. Diseases associated with TRMO include Isolated Cleft Lip and Cleft Palate, Isolated.

UniProtKB/Swiss-Prot for TRMO Gene

  • S-adenosyl-L-methionine-dependent methyltransferase responsible for the addition of the methyl group in the formation of N6-methyl-N6-threonylcarbamoyladenosine at position 37 (m(6)t(6)A37) of the tRNA anticodon loop of tRNA(Ser)(GCU) (PubMed:25063302). The methyl group of m(6)t(6)A37 may improve the efficiency of the tRNA decoding ability. May bind to tRNA (By similarity).

Additional gene information for TRMO Gene

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

Genomics for TRMO Gene

GeneHancer (GH) Regulatory Elements for TRMO Gene

Promoters and enhancers for TRMO 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
GH09I097918 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 591.5 +1.3 1332 5.9 CLOCK ZFP64 FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF416 ZNF143 TRMO NCBP1 TSTD2 ZNF322P1 NUTM2G MFSD14C ZNF782 ANP32B ENSG00000236896 HEMGN
GH09I097873 Enhancer 1.5 VISTA Ensembl ENCODE 32.8 +46.5 46488 4.3 PKNOX1 FOXA2 SIN3A ETS1 TCF12 ZNF143 FOS DEK REST SMARCB1 FOXE1 TRMO GC09P097870 GC09P097916
GH09I097904 Enhancer 1.2 FANTOM5 Ensembl ENCODE dbSUPER 36 +15.5 15509 4.9 CTCF MEIS2 ATF2 NR2F2 POLR2A ZBTB33 RUNX3 SPI1 TRMO FOXE1 KRT18P13 XPA TBC1D2 GC09P097916 GC09P097870
GH09I097932 Promoter/Enhancer 1.7 EPDnew ENCODE dbSUPER 21.5 -16.1 -16125 11.6 HDGF PKNOX1 SMAD1 ATF1 ARNT NCOA2 TCF12 ZNF766 GATA2 E2F8 HEMGN ENSG00000236896 TRMO ANP32B ANKS6 FOXE1
GH09I098034 Enhancer 1 Ensembl ENCODE 17.7 -113.7 -113676 3.5 RB1 ARID4B BATF KLF5 RAD21 ZNF335 ZNF121 ZNF143 ATF7 FOS NANS TRMO ENSG00000236896 ANP32B ENSG00000201830 TBC1D2 TSTD2 RNU6-918P
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TRMO on UCSC Golden Path with GeneCards custom track

Genomic Locations for TRMO Gene

Genomic Locations for TRMO Gene
chr9:97,876,324-97,922,570
(GRCh38/hg38)
Size:
46,247 bases
Orientation:
Minus strand
chr9:100,666,771-100,684,852
(GRCh37/hg19)

Genomic View for TRMO Gene

Genes around TRMO on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for TRMO Gene

Proteins for TRMO Gene

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

    Protein Symbol:
    Q9BU70-TRMO_HUMAN
    Recommended name:
    tRNA (adenine(37)-N6)-methyltransferase
    Protein Accession:
    Q9BU70
    Secondary Accessions:
    • Q5T113
    • Q86SK0
    • Q9NXJ7
    • Q9P0Q7

    Protein attributes for TRMO Gene

    Size:
    441 amino acids
    Molecular mass:
    48587 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAF36139.1; Type=Frameshift; Positions=Several; Evidence={ECO:0000305}; Sequence=AAF36139.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence.; Evidence={ECO:0000305};

neXtProt entry for TRMO Gene

Post-translational modifications for TRMO Gene

No Post-translational modifications

No data available for DME Specific Peptides for TRMO Gene

Domains & Families for TRMO Gene

Gene Families for TRMO Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for TRMO Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with TRMO: view

No data available for UniProtKB/Swiss-Prot for TRMO Gene

Function for TRMO Gene

Molecular function for TRMO Gene

UniProtKB/Swiss-Prot Function:
S-adenosyl-L-methionine-dependent methyltransferase responsible for the addition of the methyl group in the formation of N6-methyl-N6-threonylcarbamoyladenosine at position 37 (m(6)t(6)A37) of the tRNA anticodon loop of tRNA(Ser)(GCU) (PubMed:25063302). The methyl group of m(6)t(6)A37 may improve the efficiency of the tRNA decoding ability. May bind to tRNA (By similarity).

Enzyme Numbers (IUBMB) for TRMO Gene

Phenotypes From GWAS Catalog for TRMO Gene

Gene Ontology (GO) - Molecular Function for TRMO Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008168 methyltransferase activity IEA --
GO:0016430 tRNA (adenine-N6-)-methyltransferase activity IDA 25063302
GO:0016740 transferase activity IEA --
genes like me logo Genes that share ontologies with TRMO: view
genes like me logo Genes that share phenotypes with TRMO: view

Animal Models for TRMO Gene

MGI Knock Outs for TRMO:
  • Trmo tm1a(EUCOMM)Wtsi

Animal Model Products

miRNA for TRMO Gene

miRTarBase miRNAs that target TRMO

Clone Products

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

Localization for TRMO 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 TRMO gene
Compartment Confidence
nucleus 4
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for TRMO Gene

Pathways & Interactions for TRMO Gene

No Data Available

Gene Ontology (GO) - Biological Process for TRMO Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030488 tRNA methylation IDA 25063302
GO:0032259 methylation IEA --
genes like me logo Genes that share ontologies with TRMO: view

No data available for Pathways by source and SIGNOR curated interactions for TRMO Gene

Drugs & Compounds for TRMO Gene

(2) Drugs for TRMO Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Hexanoyl-CoA Experimental Pharma 0
Propanoyl-CoA Experimental Pharma 0

(30) Additional Compounds for TRMO Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
(2E)-Decenoyl-CoA
  • (E)-S-2-decenoate
  • (E)-S-2-decenoate CoA
  • (E)-S-2-decenoate Coenzyme A
  • (E)-S-2-decenoic acid
  • 2-trans-Decenoyl-CoA
10018-95-8
(2E)-Dodecenoyl-CoA
  • (2E)-Dodec-2-enoyl-CoA
  • (2E)-Dodec-2-enoyl-Coenzyme A
  • 2-trans-Dodecenoyl-CoA
  • 2-trans-Dodecenoyl-Coenzyme A
1066-12-2
(2E)-Hexadecenoyl-CoA
  • (2E)-Hexadecenoyl-CoA
  • (2E)-Hexadecenoyl-Coenzyme A
  • trans-2-Hexadecenoyl-CoA
  • trans-2-Hexadecenoyl-Coenzyme A
4460-95-1
(2E)-Octenoyl-CoA
  • (E)-S-2-octenoate
  • (E)-S-2-octenoate CoA
  • (E)-S-2-octenoate Coenzyme A
  • (E)-S-2-octenoic acid
  • 2,3-trans-Octenoyl coenzyme A
10018-94-7
(2E)-Tetradecenoyl-CoA
  • (2E)-Tetradecenoyl-CoA
  • (2E)-Tetradecenoyl-Coenzyme A
  • Trans-tetra-dec-2-enoyl-CoA
  • Trans-tetra-dec-2-enoyl-CoA.
  • Trans-tetra-dec-2-enoyl-Coenzyme A
38795-33-4
genes like me logo Genes that share compounds with TRMO: view

Transcripts for TRMO Gene

Clone Products

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

No ASD Table

Relevant External Links for TRMO Gene

GeneLoc Exon Structure for
TRMO
ECgene alternative splicing isoforms for
TRMO

Expression for TRMO Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

NURSA nuclear receptor signaling pathways regulating expression of TRMO Gene:

TRMO

Evidence on tissue expression from TISSUES for TRMO Gene

  • Lung(4.3)
  • Intestine(4.2)
  • Blood(4)
genes like me logo Genes that share expression patterns with TRMO: view

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 , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRMO Gene

Orthologs for TRMO Gene

This gene was present in the common ancestor of chordates.

Orthologs for TRMO Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia C9H9orf156 33
  • 99.09 (n)
C9orf156 34
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia C11H9orf156 33
  • 84.77 (n)
C9orf156 34
  • 79 (a)
OneToOne
cow
(Bos Taurus)
Mammalia C8H9orf156 33
  • 81.49 (n)
C8H9ORF156 34
  • 75 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia RGD1305420 33
  • 79.04 (n)
mouse
(Mus musculus)
Mammalia 5830415F09Rik 33 34
  • 78.23 (n)
Trmo 16
oppossum
(Monodelphis domestica)
Mammalia C9orf156 34
  • 57 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia C9orf156 34
  • 57 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia c9orf156 33
  • 59.64 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.14287 33
zebrafish
(Danio rerio)
Actinopterygii zgc:123172 33
  • 61.52 (n)
C1H9orf156 34
  • 38 (a)
OneToOne
Species where no ortholog for TRMO was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • chicken (Gallus gallus)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • 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 squirt (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)
  • worm (Caenorhabditis elegans)

Evolution for TRMO Gene

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

Paralogs for TRMO Gene

No data available for Paralogs for TRMO Gene

Variants for TRMO Gene

Sequence variations from dbSNP and Humsavar for TRMO Gene

SNP ID Clin Chr 09 pos Variation AA Info Type
rs1000018684 -- 97,908,030(-) T/C intron_variant
rs1000162167 -- 97,885,098(-) C/A/T genic_downstream_transcript_variant, intron_variant
rs1000275920 -- 97,904,506(-) A/G 3_prime_UTR_variant, intron_variant
rs1000278623 -- 97,885,379(-) C/T genic_downstream_transcript_variant, intron_variant
rs1000279633 -- 97,913,496(-) C/T 5_prime_UTR_variant, coding_sequence_variant, missense_variant, non_coding_transcript_variant

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

Variant ID Type Subtype PubMed ID
esv3621195 CNV loss 21293372
nsv1048135 CNV loss 25217958
nsv524282 CNV loss 19592680
nsv525113 CNV loss 19592680

Variation tolerance for TRMO Gene

Residual Variation Intolerance Score: 48.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.01; 74.93% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TRMO Gene

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

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

Disorders for TRMO Gene

MalaCards: The human disease database

(2) MalaCards diseases for TRMO Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
isolated cleft lip
cleft palate, isolated
  • cpi
- elite association - COSMIC cancer census association via MalaCards
Search TRMO in MalaCards View complete list of genes associated with diseases
genes like me logo Genes that share disorders with TRMO: view

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

Publications for TRMO Gene

  1. Discovery of the β-barrel-type RNA methyltransferase responsible for N6-methylation of N6-threonylcarbamoyladenosine in tRNAs. (PMID: 25063302) Kimura S … Suzuki T (Nucleic acids research 2014) 2 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells. (PMID: 11042152) Zhang QH … Chen Z (Genome research 2000) 3 4 58
  4. Binding of HIV-1 Nef to a novel thioesterase enzyme correlates with Nef-mediated CD4 down-regulation. (PMID: 9153233) Liu LX … Benichou S (The Journal of biological chemistry 1997) 3 4 58
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58

Products for TRMO Gene

Sources for TRMO Gene

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