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thumpd2 THUMP domain containing 2 [ Danio rerio (zebrafish) ]

Gene ID: 562797, updated on 17-Sep-2024

Summary

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Official Symbol
thumpd2provided by ZNC
Official Full Name
THUMP domain containing 2provided by ZNC
Primary source
ZFIN:ZDB-GENE-090428-2
See related
Ensembl:ENSDARG00000093070 AllianceGenome:ZFIN:ZDB-GENE-090428-2
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Summary
Predicted to enable tRNA (guanine) methyltransferase activity. Predicted to be involved in tRNA methylation. Predicted to act upstream of or within methylation. Orthologous to human THUMPD2 (THUMP domain containing 2). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 17
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (24623513..24631252)
105 previous assembly GRCz10 (GCF_000002035.5) 17 NC_007128.6 (24604523..24612850)

Chromosome 17 - NC_007128.7Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA Z195/SNORD33/SNORD32 family Neighboring gene ribosomal protein L13a Neighboring gene COMM domain containing 9 Neighboring gene mitogen-activated protein kinase kinase kinase kinase 3b Neighboring gene Rho guanine nucleotide exchange factor (GEF) 33

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  3. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables methyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables tRNA (guanine) methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within methylation IEA
Inferred from Electronic Annotation
more info
  
involved_in tRNA methylation IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
THUMP domain-containing protein 2

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007128.7 Reference GRCz11 Primary Assembly

    Range
    24623513..24631252
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_686171.8 → XP_691263.4  THUMP domain-containing protein 2 isoform X1

    UniProtKB/TrEMBL
    A0A8N7UVV7, X1WET5
    Related
    ENSDARP00000128736.1, ENSDART00000156734.2
    Conserved Domains (2) summary
    cd11715
    Location:4 → 217
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl17173
    Location:225 → 358
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394990.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    185428..193234
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021473168.2 → XP_021328843.1  THUMP domain-containing protein 2 isoform X2

    UniProtKB/TrEMBL
    A0A8M9PP87
    Conserved Domains (2) summary
    cl17173
    Location:225 → 358
    AdoMet_MTases; S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). ...
    cl28094
    Location:1 → 355
    Trm11; tRNA G10 N-methylase Trm11 [Translation, ribosomal structure and biogenesis]
Nucleotide Protein Strain
Heading Accession and Version

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