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sprtn SprT-like N-terminal domain [ Danio rerio (zebrafish) ]

Gene ID: 101886162, updated on 27-Mar-2024

Summary

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Official Symbol
sprtnprovided by ZNC
Official Full Name
SprT-like N-terminal domainprovided by ZNC
Primary source
ZFIN:ZDB-GENE-170317-1
See related
Ensembl:ENSDARG00000104709 AllianceGenome:ZFIN:ZDB-GENE-170317-1
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Summary
Predicted to enable double-stranded DNA binding activity; metalloendopeptidase activity; and single-stranded DNA binding activity. Acts upstream of or within cellular response to DNA damage stimulus. Predicted to be located in chromatin and nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 20
Exon count:
5
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 20 NC_007131.7 (4035370..4050469, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 20 NC_007131.6 (3981510..3996239)

Chromosome 20 - NC_007131.7Genomic Context describing neighboring genes Neighboring gene tetratricopeptide repeat domain 13 Neighboring gene ARV1 homolog, fatty acid homeostasis modulator Neighboring gene family with sequence similarity 89 member A Neighboring gene exocyst complex component 8 Neighboring gene tripartite motif containing 67

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
  • 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. Mutations in SPRTN cause early onset hepatocellular carcinoma, genomic instability and progeroid features. Lessel D, et al. Nat Genet, 2014 Nov. PMID 25261934, Free PMC Article
  2. Tdp1 protects from topoisomerase 1-mediated chromosomal breaks in adult zebrafish but is dispensable during larval development. Zaksauskaite R, et al. Sci Adv, 2021 Jan. PMID 33514542, Free PMC Article
  3. 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

What's a GeneRIF?
  1. Tyrosyl-DNA phosphodiesterase 1 (TDP1) and SPRTN protease repair histone 3 and topoisomerase 1 DNA-protein crosslinks in vivo.
    Title: Tyrosyl-DNA phosphodiesterase 1 (TDP1) and SPRTN protease repair histone 3 and topoisomerase 1 DNA-protein crosslinks in vivo.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables double-stranded DNA binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables metalloendopeptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables metalloendopeptidase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables metallopeptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables peptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables single-stranded DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables single-stranded DNA binding ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within DNA damage response IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within DNA damage response IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in DNA damage response ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within DNA repair IEA
Inferred from Electronic Annotation
more info
  
involved_in protein autoprocessing ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein-DNA covalent cross-linking repair ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within proteolysis IEA
Inferred from Electronic Annotation
more info
  
involved_in proteolysis ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
part_of chromatin ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in chromosome IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
DNA-dependent metalloprotease SPRTN; sprT-like domain-containing protein Spartan
Names
dNA-dependent metalloprotease SPRTN
protein with SprT-like domain at the N terminus
spartan
XP_005173863.1

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_001423865.1 → NP_001410794.1  DNA-dependent metalloprotease SPRTN

    Status: VALIDATED

    Source sequence(s)
    EH546539, GDQH01020107, GDQQ01008169
    UniProtKB/Swiss-Prot
    A0A0G2L7I0

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007131.7 Reference GRCz11 Primary Assembly

    Range
    4035370..4050469 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005173806.4 → XP_005173863.1  sprT-like domain-containing protein Spartan

    UniProtKB/TrEMBL
    A0A0G2L7I0
    Related
    ENSDARP00000140734.1, ENSDART00000158057.2
    Conserved Domains (3) summary
    smart00734
    Location:613 → 635
    ZnF_Rad18; Rad18-like CCHC zinc finger
    smart00731
    Location:73 → 242
    SprT; SprT homologues
    cl41736
    Location:3 → 20
    MIU2_RNF168-like; second motif interacting with ubiquitin domain found in RING finger protein 168 and similar domains
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A0A0G2L7I0.1 GenPept UniProtKB/Swiss-Prot:A0A0G2L7I0

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.