Human Gene TRMT11 (uc003qam.3)
  Description: Homo sapiens tRNA methyltransferase 11 homolog (S. cerevisiae) (TRMT11), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr6:126,307,576-126,360,420 Size: 52,845 Total Exon Count: 13 Strand: +
Coding Region
   Position: hg19 chr6:126,307,697-126,359,982 Size: 52,286 Coding Exon Count: 13 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:126,307,576-126,360,420)mRNA (may differ from genome)Protein (463 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtPubMedReactomeTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TRM11_HUMAN
DESCRIPTION: RecName: Full=tRNA (guanine(10)-N2)-methyltransferase homolog; EC=2.1.1.-; AltName: Full=tRNA guanosine-2'-O-methyltransferase TRM11 homolog;
FUNCTION: Catalytic subunit of an S-adenosyl-L-methionine- dependent tRNA methyltransferase complex that mediates the methylation of the guanosine nucleotide at position 10 (m2G10) in tRNAs (By similarity).
SIMILARITY: Belongs to the methyltransferase superfamily.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 14.27 RPKM in Pituitary
Total median expression: 342.50 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -57.40121-0.474 Picture PostScript Text
3' UTR -77.22438-0.176 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR002052 - DNA_methylase_N6_adenine_CS
IPR002296 - N12N6_MeTrfase
IPR000241 - RNA_methylase_dom
IPR016691 - tRNA_mtfrase_TRM11

Pfam Domains:
PF01170 - Putative RNA methylase family UPF0020

SCOP Domains:
53335 - S-adenosyl-L-methionine-dependent methyltransferases

ModBase Predicted Comparative 3D Structure on Q7Z4G4
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsemblFlyBase  
 Protein SequenceProtein SequenceProtein Sequence  
 AlignmentAlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000049 tRNA binding
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0004809 tRNA (guanine-N2-)-methyltransferase activity
GO:0008168 methyltransferase activity
GO:0016740 transferase activity

Biological Process:
GO:0008033 tRNA processing
GO:0030488 tRNA methylation
GO:0032259 methylation


-  Descriptions from all associated GenBank mRNAs
  BC056878 - Homo sapiens tRNA methyltransferase 11 homolog (S. cerevisiae), mRNA (cDNA clone MGC:64978 IMAGE:4443778), complete cds.
AF532977 - Homo sapiens putative RNA methylase mRNA, complete cds.
BC017696 - Homo sapiens tRNA methyltransferase 11 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:4393374), **** WARNING: chimeric clone ****.
AF182423 - Homo sapiens MDS024 (MDS024) mRNA, complete cds.
KJ899400 - Synthetic construct Homo sapiens clone ccsbBroadEn_08794 TRMT11 gene, encodes complete protein.
JD214094 - Sequence 195118 from Patent EP1572962.
JD294265 - Sequence 275289 from Patent EP1572962.
AK308651 - Homo sapiens cDNA, FLJ98692.
JD102849 - Sequence 83873 from Patent EP1572962.
JD020278 - Sequence 1302 from Patent EP1572962.
JD355790 - Sequence 336814 from Patent EP1572962.
JD034628 - Sequence 15652 from Patent EP1572962.
JD552927 - Sequence 533951 from Patent EP1572962.
JD023969 - Sequence 4993 from Patent EP1572962.
JD034839 - Sequence 15863 from Patent EP1572962.
JD375011 - Sequence 356035 from Patent EP1572962.
JD376978 - Sequence 358002 from Patent EP1572962.
JD304590 - Sequence 285614 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa00340 - Histidine metabolism
hsa00350 - Tyrosine metabolism
hsa00450 - Selenoamino acid metabolism

Reactome (by CSHL, EBI, and GO)

Protein Q7Z4G4 (Reactome details) participates in the following event(s):

R-HSA-6786501 TRMT11:TRMT112 methylates guanosine-10 in tRNA
R-HSA-6782315 tRNA modification in the nucleus and cytosol
R-HSA-72306 tRNA processing
R-HSA-8953854 Metabolism of RNA

-  Other Names for This Gene
  Alternate Gene Symbols: C6orf75, E1P570, MDS024, NM_001031712, NP_001026882, Q5JY11, Q6PGQ5, Q7Z4G4, Q9HC13, TRM11_HUMAN
UCSC ID: uc003qam.3
RefSeq Accession: NM_001031712
Protein: Q7Z4G4 (aka TRM11_HUMAN)
CCDS: CCDS35496.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001031712.2
exon count: 13CDS single in 3' UTR: no RNA size: 1967
ORF size: 1392CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2975.00frame shift in genome: no % Coverage: 99.19
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.