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THUMPD1 THUMP domain containing 1 [ Homo sapiens (human) ]

Gene ID: 55623, updated on 5-Feb-2023

Summary

Official Symbol
THUMPD1provided by HGNC
Official Full Name
THUMP domain containing 1provided by HGNC
Primary source
HGNC:HGNC:23807
See related
Ensembl:ENSG00000066654 MIM:616662; AllianceGenome:HGNC:23807
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
Also known as
Tan1; NEDSOA
Summary
Enables RNA binding activity. Predicted to be involved in tRNA modification. Predicted to be located in nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in prostate (RPKM 15.3), endometrium (RPKM 11.9) and 25 other tissues See more
Orthologs
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Genomic context

See THUMPD1 in Genome Data Viewer
Location:
16p12.3
Exon count:
5
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (20733664..20741818, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (20664595..20672749, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (20744986..20753140, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene acyl-CoA synthetase medium chain family member 1 Neighboring gene acyl-CoA synthetase medium chain family member 3 Neighboring gene NADH-ubiquinone oxidoreductase chain 5-like Neighboring gene acyl-CoA synthetase medium chain family member 4 pseudogene Neighboring gene RNA, U6 small nuclear 944, pseudogene Neighboring gene ERI1 exoribonuclease family member 2 Neighboring gene RNA exonuclease 5 Neighboring gene uncharacterized LOC105371121

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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
nucleocapsid gag HIV-1 NC is identified to have a physical interaction with THUMP domain containing 1 (THUMPD1) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • DKFZp686C1054

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in tRNA modification IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in nucleoplasm TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
THUMP domain-containing protein 1

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_001304550.2NP_001291479.1  THUMP domain-containing protein 1

    See identical proteins and their annotated locations for NP_001291479.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR compared to variant 1. Variants 1 and 2 both encode the same protein.
    Source sequence(s)
    AC004381
    Consensus CDS
    CCDS10588.1
    UniProtKB/Swiss-Prot
    Q9BWC3, Q9NXG2
    UniProtKB/TrEMBL
    A0A024R388, Q6MZT3
    Related
    ENSP00000370741.2, ENST00000381337.6
    Conserved Domains (1) summary
    cd11717
    Location:45254
    THUMP_THUMPD1_like; THUMP domain-containing protein 1-like
  2. NM_017736.5NP_060206.2  THUMP domain-containing protein 1

    See identical proteins and their annotated locations for NP_060206.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 both encode the same protein.
    Source sequence(s)
    AC004381
    Consensus CDS
    CCDS10588.1
    UniProtKB/Swiss-Prot
    Q9BWC3, Q9NXG2
    UniProtKB/TrEMBL
    A0A024R388, Q6MZT3
    Related
    ENSP00000379392.2, ENST00000396083.7
    Conserved Domains (1) summary
    cd11717
    Location:45254
    THUMP_THUMPD1_like; THUMP domain-containing protein 1-like

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    20733664..20741818 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    20664595..20672749 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)