Human Gene DIMT1 (ENST00000199320.9_7) from GENCODE V47lift37
  Description: DIM1 rRNA methyltransferase and ribosome maturation factor, transcript variant 1 (from RefSeq NM_014473.4)
Gencode Transcript: ENST00000199320.9_7
Gencode Gene: ENSG00000086189.11_11
Transcript (Including UTRs)
   Position: hg19 chr5:61,683,081-61,699,732 Size: 16,652 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg19 chr5:61,684,837-61,699,599 Size: 14,763 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:61,683,081-61,699,732)mRNA (may differ from genome)Protein (313 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: DIM1_HUMAN
DESCRIPTION: RecName: Full=Probable dimethyladenosine transferase; EC=2.1.1.183; AltName: Full=DIM1 dimethyladenosine transferase 1 homolog; AltName: Full=DIM1 dimethyladenosine transferase 1-like; AltName: Full=Probable 18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase; AltName: Full=Probable 18S rRNA dimethylase; AltName: Full=Probable S-adenosylmethionine-6-N',N'-adenosyl(rRNA) dimethyltransferase;
FUNCTION: Specifically dimethylates two adjacent adenosines in the loop of a conserved hairpin near the 3'-end of 18S rRNA in the 40S particle (By similarity).
CATALYTIC ACTIVITY: 4 S-adenosyl-L-methionine + adenine(1779)/adenine(1780) in 18S rRNA = 4 S-adenosyl-L- homocysteine + N(6)-dimethyladenine(1779)/N(6)- dimethyladenine(1780) in 18S rRNA.
SUBCELLULAR LOCATION: Nucleus, nucleolus.
SIMILARITY: Belongs to the methyltransferase superfamily. rRNA adenine N(6)-methyltransferase family.
SEQUENCE CAUTION: Sequence=AAC72947.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Sequence of unknown origin in the N-terminal part;

-  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: 14.30 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 437.57 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 -55.70133-0.419 Picture PostScript Text
3' UTR -361.201756-0.206 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
IPR025814 - DIM1
IPR020596 - rRNA_Ade_Mease_Trfase_CS
IPR001737 - rRNA_Ade_methylase_transferase
IPR020598 - rRNA_Ade_methylase_Trfase_N
IPR011530 - rRNA_adenine_dimethylase

Pfam Domains:
PF00398 - Ribosomal RNA adenine dimethylase
PF08241 - Methyltransferase domain
PF13649 - Methyltransferase domain

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

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1ZQ9 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9UNQ2
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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 orthologNo orthologNo orthologNo orthologNo orthologGenome Browser
Gene DetailsGene Details Gene Details Gene Details
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 RGDEnsembl  SGD
     Protein Sequence
     Alignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity
GO:0003723 RNA binding
GO:0008168 methyltransferase activity
GO:0008649 rRNA methyltransferase activity
GO:0016740 transferase activity
GO:0052909 18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase activity

Biological Process:
GO:0000154 rRNA modification
GO:0006364 rRNA processing
GO:0031167 rRNA methylation
GO:0032259 methylation
GO:2000234 positive regulation of rRNA processing

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus
GO:0005759 mitochondrial matrix
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  LF209898 - JP 2014500723-A/17401: Polycomb-Associated Non-Coding RNAs.
LF332521 - JP 2014500723-A/140024: Polycomb-Associated Non-Coding RNAs.
AF091078 - Homo sapiens clone 559 unknown mRNA, complete sequence.
AJ009761 - Homo sapiens mRNA for putative dimethyladenosine transferase, partial.
AF102147 - Homo sapiens putative dimethyladenosine transferase mRNA, complete cds.
BC010874 - Homo sapiens DIM1 dimethyladenosine transferase 1-like (S. cerevisiae), mRNA (cDNA clone MGC:9968 IMAGE:3878818), complete cds.
AK292723 - Homo sapiens cDNA FLJ75823 complete cds, highly similar to Homo sapiens dimethyladenosine transferase (HSA9761), mRNA.
BC017885 - Homo sapiens cDNA clone IMAGE:4297559, containing frame-shift errors.
JD506358 - Sequence 487382 from Patent EP1572962.
JD552793 - Sequence 533817 from Patent EP1572962.
JD057010 - Sequence 38034 from Patent EP1572962.
DQ891482 - Synthetic construct clone IMAGE:100004112; FLH177362.01X; RZPDo839G10124D dimethyladenosine transferase (HSA9761) gene, encodes complete protein.
KJ898686 - Synthetic construct Homo sapiens clone ccsbBroadEn_08080 DIMT1 gene, encodes complete protein.
DQ894669 - Synthetic construct Homo sapiens clone IMAGE:100009129; FLH177359.01L; RZPDo839G10123D dimethyladenosine transferase (HSA9761) gene, encodes complete protein.
DQ894841 - Synthetic construct Homo sapiens clone IMAGE:100009301; FLH263638.01L; RZPDo839B09129D dimethyladenosine transferase (HSA9761) gene, encodes complete protein.
AB590206 - Synthetic construct DNA, clone: pFN21AE1539, Homo sapiens DIMT1L gene for DIM1 dimethyladenosine transferase 1-like, without stop codon, in Flexi system.
BC002841 - Homo sapiens DIM1 dimethyladenosine transferase 1-like (S. cerevisiae), mRNA (cDNA clone MGC:3382 IMAGE:3638494), complete cds.
KJ906122 - Synthetic construct Homo sapiens clone ccsbBroadEn_15792 DIMT1 gene, encodes complete protein.
AK299480 - Homo sapiens cDNA FLJ56719 complete cds, highly similar to Probable dimethyladenosine transferase (EC 2.1.1.-).
LF332517 - JP 2014500723-A/140020: Polycomb-Associated Non-Coding RNAs.
JD116687 - Sequence 97711 from Patent EP1572962.
MA568098 - JP 2018138019-A/140024: Polycomb-Associated Non-Coding RNAs.
MA568094 - JP 2018138019-A/140020: Polycomb-Associated Non-Coding RNAs.
MA445475 - JP 2018138019-A/17401: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9UNQ2 (Reactome details) participates in the following event(s):

R-HSA-6790994 DIMT1 dimethylates adenosine-1850,1851 of 18S rRNA yielding 6-dimethyladenosine-1850,1851
R-HSA-6790901 rRNA modification in the nucleus and cytosol
R-HSA-8868773 rRNA processing in the nucleus and cytosol
R-HSA-72312 rRNA processing
R-HSA-8953854 Metabolism of RNA

-  Other Names for This Gene
  Alternate Gene Symbols: DIM1_HUMAN, DIMT1 , DIMT1L, ENST00000199320.1, ENST00000199320.2, ENST00000199320.3, ENST00000199320.4, ENST00000199320.5, ENST00000199320.6, ENST00000199320.7, ENST00000199320.8, HUSSY-05, NM_014473, O76025, Q9BU77, Q9UES1, Q9UNQ2, uc317chi.1, uc317chi.2
UCSC ID: ENST00000199320.9_7
RefSeq Accession: NM_014473.4
Protein: Q9UNQ2 (aka DIM1_HUMAN)

-  Gene Model Information
  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.