U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

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

    Gene ID: 492463, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    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 active in nucleus. Orthologous to human NEIL3 (nei like DNA glycosylase 3). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See neil3 in Genome Data Viewer
    Location:
    chromosome: 14
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 14 NC_007125.7 (36414856..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

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    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

    Go to the top of the page Help

    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
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    endonuclease 8-like 3
    Names
    nei endonuclease VIII-like 3
    NP_001007336.1
    XP_005157375.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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: GCF_000002035.6-RS_2024_08

    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
      36414856..36428437
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005157318.4 → 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

    Gene LinkOut

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