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Thumpd2 THUMP domain containing 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 313851, updated on 27-Nov-2024

Summary

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Official Symbol
Thumpd2provided by RGD
Official Full Name
THUMP domain containing 2provided by RGD
Primary source
RGD:1306878
See related
EnsemblRapid:ENSRNOG00000008291 AllianceGenome:RGD:1306878
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable tRNA (guanine) methyltransferase activity. Predicted to be involved in tRNA methylation. Orthologous to human THUMPD2 (THUMP domain containing 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Adrenal (RPKM 36.4), Lung (RPKM 34.5) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Thumpd2 in Genome Data Viewer
Location:
6q12
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (19677039..19728947)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (13924742..13976657)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (3743080..3794512, complement)

Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479319 Neighboring gene histidine-rich glycoprotein-like Neighboring gene transmembrane protein 178A Neighboring gene uncharacterized LOC134479321 Neighboring gene uncharacterized LOC120103476 Neighboring gene uncharacterized LOC108351161

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC108999

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables tRNA (guanine) methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
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 maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001012108.1 → NP_001012108.2  THUMP domain-containing protein 2 isoform 2

    Status: VALIDATED

    Source sequence(s)
    BC089870
    UniProtKB/TrEMBL
    A0A0G2K0N2, Q5FVM9
    Conserved Domains (3) summary
    cd11715
    Location:18 → 76
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl12076
    Location:202 → 250
    THUMP; THUMP domain, predicted to bind RNA
    cl17173
    Location:233 → 350
    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). ...

  2. NM_001163506.1 → NP_001156978.1  THUMP domain-containing protein 2 isoform 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000006
    UniProtKB/TrEMBL
    A6H9P7, D4A475
    Related
    ENSRNOP00000011000.5, ENSRNOT00000011000.7
    Conserved Domains (2) summary
    cd11715
    Location:18 → 266
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl17173
    Location:274 → 419
    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). ...

  3. NM_001410276.1 → NP_001397205.1  THUMP domain-containing protein 2 isoform 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000006
    Related
    ENSRNOP00000075202.2, ENSRNOT00000087891.3

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086024.1 Reference GRCr8

    Range
    19677039..19728947
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_008764440.4 → XP_008762662.1  THUMP domain-containing protein 2 isoform X6

    UniProtKB/TrEMBL
    A0A0G2K0N2, A0A0G2KA02, Q5FVM9
    Conserved Domains (2) summary
    cd11715
    Location:202 → 266
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl17173
    Location:274 → 397
    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). ...

  2. XM_039112143.2 → XP_038968071.1  THUMP domain-containing protein 2 isoform X5

    UniProtKB/TrEMBL
    A0A0G2K0N2, Q5FVM9
    Conserved Domains (2) summary
    cd11715
    Location:202 → 266
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl17173
    Location:274 → 397
    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). ...

  3. XM_017594116.3 → XP_017449605.1  THUMP domain-containing protein 2 isoform X8

  4. XM_039112142.2 → XP_038968070.1  THUMP domain-containing protein 2 isoform X3

    UniProtKB/TrEMBL
    A0A8I6A3I0
    Conserved Domains (2) summary
    cd11715
    Location:202 → 266
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl17173
    Location:274 → 397
    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). ...

  5. XM_006239675.5 → XP_006239737.1  THUMP domain-containing protein 2 isoform X4

    Conserved Domains (2) summary
    cd11715
    Location:202 → 266
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl17173
    Location:274 → 397
    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). ...

  6. XM_006239677.5 → XP_006239739.1  THUMP domain-containing protein 2 isoform X7

    UniProtKB/TrEMBL
    A0A0G2K0N2, Q5FVM9
    Conserved Domains (3) summary
    cd11715
    Location:18 → 76
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl12076
    Location:202 → 250
    THUMP; THUMP domain, predicted to bind RNA
    cl17173
    Location:233 → 350
    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). ...

  7. XM_006239673.5 → XP_006239735.1  THUMP domain-containing protein 2 isoform X1

    UniProtKB/TrEMBL
    A6H9P7
    Conserved Domains (2) summary
    cd11715
    Location:18 → 76
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl17173
    Location:233 → 349
    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). ...

  8. XM_063261827.1 → XP_063117897.1  THUMP domain-containing protein 2 isoform X2

    Related
    ENSRNOP00000071513.3, ENSRNOT00000084499.3

  9. XM_039112145.2 → XP_038968073.1  THUMP domain-containing protein 2 isoform X9

    Conserved Domains (2) summary
    cd11715
    Location:18 → 76
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl17173
    Location:202 → 360
    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). ...

RNA

  1. XR_005505504.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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