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

    Gene ID: 313851, updated on 9-Dec-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, Dec 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
      UniProtKB/TrEMBL
      A6H9P7
      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

      UniProtKB/TrEMBL
      A6H9P7
      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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