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neil3 nei-like DNA glycosylase 3 [ Danio rerio (zebrafish) ]

Gene ID: 492463, updated on 27-Mar-2024

Summary

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Official Symbol
neil3provided by ZNC
Official Full Name
nei-like DNA glycosylase 3provided by ZNC
Primary source
ZFIN:ZDB-GENE-041114-18
See related
Ensembl:ENSDARG00000020079 AllianceGenome:ZFIN:ZDB-GENE-041114-18
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zgc:103553
Summary
Predicted to enable DNA N-glycosylase activity and DNA-(apurinic or apyrimidinic site) endonuclease activity. Predicted to be involved in base-excision repair. Predicted to act upstream of or within DNA repair. Predicted to be located in chromosome. Orthologous to human NEIL3 (nei like DNA glycosylase 3). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 14
Exon count:
10
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 14 NC_007125.7 (36414839..36428437)
105 previous assembly GRCz10 (GCF_000002035.5) 14 NC_007125.6 (36074532..36088123)

Chromosome 14 - NC_007125.7Genomic Context describing neighboring genes Neighboring gene spermatogenesis associated 4 Neighboring gene ankyrin repeat and SOCS box containing 5a Neighboring gene aspartylglucosaminidase Neighboring gene si:dkey-237h12.3 Neighboring gene tryptophan 2,3-dioxygenase a

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. Hematopoietic tissue-specific expression of mouse Neil3 for endonuclease VIII-like protein. Torisu K, et al. J Biochem, 2005 Dec. PMID 16428305
  2. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
  3. 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
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables DNA N-glycosylase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA N-glycosylase activity IEA
Inferred from Electronic Annotation
more info
  
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA-(apurinic or apyrimidinic site) endonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-(apurinic or apyrimidinic site) endonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables catalytic activity IEA
Inferred from Electronic Annotation
more info
  
enables class I DNA-(apurinic or apyrimidinic site) endonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables damaged DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables endonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity, acting on glycosyl bonds IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity, hydrolyzing N-glycosyl compounds IEA
Inferred from Electronic Annotation
more info
  
enables lyase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
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 repair IEA
Inferred from Electronic Annotation
more info
  
involved_in base-excision repair IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within base-excision repair IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within metabolic process IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
endonuclease 8-like 3
Names
nei endonuclease VIII-like 3
NP_001007336.1
XP_005157375.1

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_001007335.1 → NP_001007336.1  endonuclease 8-like 3

    See identical proteins and their annotated locations for NP_001007336.1

    Status: PROVISIONAL

    Source sequence(s)
    BC085550
    UniProtKB/TrEMBL
    Q5U3G8
    Related
    ENSDARP00000008228.8, ENSDART00000015761.10
    Conserved Domains (6) summary
    cd08969
    Location:1 → 129
    MeNeil3_N; N-terminal domain of metazoan Nei-like glycosylase 3 (NEIL3)
    TIGR00577
    Location:11 → 258
    fpg; DNA-formamidopyrimidine glycosylase
    sd00029
    Location:299 → 318
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:296 → 324
    zf-RanBP; Zn-finger in Ran binding protein and others
    pfam06831
    Location:130 → 205
    H2TH; Formamidopyrimidine-DNA glycosylase H2TH domain
    pfam06839
    Location:497 → 541
    zf-GRF; GRF zinc finger

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_007125.7 Reference GRCz11 Primary Assembly

    Range
    36414839..36428437
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005157318.3 → XP_005157375.1  endonuclease 8-like 3 isoform X1

    UniProtKB/TrEMBL
    A0A8M2B3F3, F1Q570
    Related
    ENSDARP00000109273.3, ENSDART00000123343.4
    Conserved Domains (6) summary
    cd08969
    Location:1 → 129
    MeNeil3_N; N-terminal domain of metazoan Nei-like glycosylase 3 (NEIL3)
    TIGR00577
    Location:11 → 258
    fpg; DNA-formamidopyrimidine glycosylase
    sd00029
    Location:299 → 318
    zf-RanBP2; RanBP2-type Zn finger [structural motif]
    pfam00641
    Location:296 → 324
    zf-RanBP; Zn-finger in Ran binding protein and others
    pfam06831
    Location:130 → 205
    H2TH; Formamidopyrimidine-DNA glycosylase H2TH domain
    pfam06839
    Location:515 → 559
    zf-GRF; GRF zinc finger

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394921.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    186584..204932
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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