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THUMPD3 THUMP domain containing 3 [ Homo sapiens (human) ]

Gene ID: 25917, updated on 7-Jun-2020

Summary

Official Symbol
THUMPD3provided by HGNC
Official Full Name
THUMP domain containing 3provided by HGNC
Primary source
HGNC:HGNC:24493
See related
Ensembl:ENSG00000134077
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Expression
Ubiquitous expression in testis (RPKM 18.1), thyroid (RPKM 8.7) and 25 other tissues See more
Orthologs

Genomic context

See THUMPD3 in Genome Data Viewer
Location:
3p25.3
Exon count:
11
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (9362862..9386791)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (9404660..9428475)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene SLIT-ROBO Rho GTPase activating protein 3 Neighboring gene SRGAP3 antisense RNA 4 Neighboring gene phosphoglycerate mutase 1 pseudogene 4 Neighboring gene THUMPD3 antisense RNA 1 Neighboring gene SET domain containing 5 Neighboring gene LHFPL tetraspan subfamily member 4

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • DKFZp434F091

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
tRNA (guanine) methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
tRNA methylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
nucleolus IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
THUMP domain-containing protein 3

NCBI Reference Sequences (RefSeq)

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_001114092.2NP_001107564.1  THUMP domain-containing protein 3

    See identical proteins and their annotated locations for NP_001107564.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same protein.
    Source sequence(s)
    AC018506, AK001680, AL117483, DA713744
    Consensus CDS
    CCDS2573.1
    UniProtKB/Swiss-Prot
    Q9BV44
    UniProtKB/TrEMBL
    A0A024R2F4
    Related
    ENSP00000395893.2, ENST00000452837.7
    Conserved Domains (2) summary
    cd11715
    Location:40286
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    pfam01170
    Location:293478
    UPF0020; Putative RNA methylase family UPF0020
  2. NM_015453.3NP_056268.2  THUMP domain-containing protein 3

    See identical proteins and their annotated locations for NP_056268.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 both encode the same protein.
    Source sequence(s)
    AC018506, AK001680, AL117483, DA713744
    Consensus CDS
    CCDS2573.1
    UniProtKB/Swiss-Prot
    Q9BV44
    UniProtKB/TrEMBL
    A0A024R2F4
    Related
    ENSP00000339532.3, ENST00000345094.7
    Conserved Domains (2) summary
    cd11715
    Location:40286
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    pfam01170
    Location:293478
    UPF0020; Putative RNA methylase family UPF0020

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    9362862..9386791
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017006116.2XP_016861605.1  THUMP domain-containing protein 3 isoform X2

  2. XM_006713086.3XP_006713149.1  THUMP domain-containing protein 3 isoform X1

    See identical proteins and their annotated locations for XP_006713149.1

    UniProtKB/Swiss-Prot
    Q9BV44
    UniProtKB/TrEMBL
    A0A024R2F4
    Conserved Domains (2) summary
    cd11715
    Location:40286
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    pfam01170
    Location:293478
    UPF0020; Putative RNA methylase family UPF0020
  3. XM_005265022.4XP_005265079.1  THUMP domain-containing protein 3 isoform X1

    See identical proteins and their annotated locations for XP_005265079.1

    UniProtKB/Swiss-Prot
    Q9BV44
    UniProtKB/TrEMBL
    A0A024R2F4
    Related
    ENSP00000424064.1, ENST00000515662.6
    Conserved Domains (2) summary
    cd11715
    Location:40286
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    pfam01170
    Location:293478
    UPF0020; Putative RNA methylase family UPF0020
  4. XM_005265021.4XP_005265078.1  THUMP domain-containing protein 3 isoform X1

    See identical proteins and their annotated locations for XP_005265078.1

    UniProtKB/Swiss-Prot
    Q9BV44
    UniProtKB/TrEMBL
    A0A024R2F4
    Conserved Domains (2) summary
    cd11715
    Location:40286
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    pfam01170
    Location:293478
    UPF0020; Putative RNA methylase family UPF0020
  5. XM_017006114.1XP_016861603.1  THUMP domain-containing protein 3 isoform X2

  6. XM_017006113.1XP_016861602.1  THUMP domain-containing protein 3 isoform X2

  7. XM_017006118.2XP_016861607.1  THUMP domain-containing protein 3 isoform X3

    Conserved Domains (2) summary
    cd11715
    Location:40286
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl17173
    Location:317416
    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_017006117.2XP_016861606.1  THUMP domain-containing protein 3 isoform X3

    Conserved Domains (2) summary
    cd11715
    Location:40286
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl17173
    Location:317416
    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). ...
  9. XM_017006119.2XP_016861608.1  THUMP domain-containing protein 3 isoform X3

    Conserved Domains (2) summary
    cd11715
    Location:40286
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl17173
    Location:317416
    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). ...
  10. XM_005265024.5XP_005265081.1  THUMP domain-containing protein 3 isoform X1

    See identical proteins and their annotated locations for XP_005265081.1

    UniProtKB/Swiss-Prot
    Q9BV44
    UniProtKB/TrEMBL
    A0A024R2F4
    Conserved Domains (2) summary
    cd11715
    Location:40286
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    pfam01170
    Location:293478
    UPF0020; Putative RNA methylase family UPF0020
  11. XM_017006115.2XP_016861604.1  THUMP domain-containing protein 3 isoform X2

  12. XM_011533571.3XP_011531873.1  THUMP domain-containing protein 3 isoform X3

    Conserved Domains (2) summary
    cd11715
    Location:40286
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    cl17173
    Location:317416
    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). ...
  13. XM_005265023.3XP_005265080.1  THUMP domain-containing protein 3 isoform X1

    See identical proteins and their annotated locations for XP_005265080.1

    UniProtKB/Swiss-Prot
    Q9BV44
    UniProtKB/TrEMBL
    A0A024R2F4
    Conserved Domains (2) summary
    cd11715
    Location:40286
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    pfam01170
    Location:293478
    UPF0020; Putative RNA methylase family UPF0020
  14. XM_011533570.2XP_011531872.1  THUMP domain-containing protein 3 isoform X1

    See identical proteins and their annotated locations for XP_011531872.1

    UniProtKB/Swiss-Prot
    Q9BV44
    UniProtKB/TrEMBL
    A0A024R2F4
    Conserved Domains (2) summary
    cd11715
    Location:40286
    THUMP_AdoMetMT; THUMP domain associated with S-adenosylmethionine-dependent methyltransferases
    pfam01170
    Location:293478
    UPF0020; Putative RNA methylase family UPF0020
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