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    padi2 peptidyl arginine deiminase, type II [ Danio rerio (zebrafish) ]

    Gene ID: 386792, updated on 2-Nov-2024

    Summary

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    Official Symbol
    padi2provided by ZNC
    Official Full Name
    peptidyl arginine deiminase, type IIprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-031116-67
    See related
    Ensembl:ENSDARG00000044167 AllianceGenome:ZFIN:ZDB-GENE-031116-67
    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
    sb:cb968; zgc:66317
    Summary
    Enables histone arginine deiminase activity. Acts upstream of or within vasculature development. Predicted to be active in cytoplasm and nucleus. Is expressed in epidermis; pectoral fin musculature; periderm; pharynx; and sensory system. Orthologous to several human genes including PADI2 (peptidyl arginine deiminase 2). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See padi2 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (47843790..47866078)
    105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (47845001..47867325)

    Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene novel protein similar to human membrane-associated guanylate kinase-related (MAGI-3) (MAGI-3) Neighboring gene uncharacterized LOC110439877 Neighboring gene leucine-rich repeats and immunoglobulin-like domains 2 Neighboring gene RAP1 GTPase activating protein b Neighboring gene Sad1 and UNC84 domain containing 2

    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 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. Citrullination regulates wound responses and tissue regeneration in zebrafish. Golenberg N, et al. J Cell Biol, 2020 Apr 6. PMID 32328635, Free PMC Article
    2. Identification of Padi2 as a novel angiogenesis-regulating gene by genome association studies in mice. Khajavi M, et al. PLoS Genet, 2017 Jun. PMID 28617813, Free PMC Article
    3. Tardbpl splicing rescues motor neuron and axonal development in a mutant tardbp zebrafish. Hewamadduma CA, et al. Hum Mol Genet, 2013 Jun 15. PMID 23427147, Free PMC Article
    4. The gene regulatory basis of genetic compensation during neural crest induction. Dooley CM, et al. PLoS Genet, 2019 Jun. PMID 31199790, Free PMC Article
    5. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Huang HT, et al. Nat Cell Biol, 2013 Dec. PMID 24240475, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables histone arginine deiminase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein-arginine deiminase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein-arginine deiminase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within vasculature development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    protein-arginine deiminase type-2
    NP_956406.1
    XP_005172154.1
    XP_005172155.1

    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_200112.1 → NP_956406.1  protein-arginine deiminase type-2

      See identical proteins and their annotated locations for NP_956406.1

      Status: PROVISIONAL

      Source sequence(s)
      BC057513
      UniProtKB/TrEMBL
      Q6PFK7
      Related
      ENSDARP00000064841.5, ENSDART00000064842.6
      Conserved Domains (3) summary
      pfam03068
      Location:294 → 644
      PAD; Protein-arginine deiminase (PAD)
      pfam08527
      Location:110 → 280
      PAD_M; Protein-arginine deiminase (PAD) middle domain
      cl19115
      Location:1 → 108
      Cupredoxin; Cupredoxin superfamily

    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_007117.7 Reference GRCz11 Primary Assembly

      Range
      47843790..47866078
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005172097.5 → XP_005172154.1  protein-arginine deiminase type-2 isoform X1

      UniProtKB/TrEMBL
      A0A8M2BJD0
      Conserved Domains (3) summary
      pfam03068
      Location:320 → 698
      PAD; Protein-arginine deiminase (PAD)
      pfam08527
      Location:136 → 306
      PAD_M; Protein-arginine deiminase (PAD) middle domain
      cl19115
      Location:30 → 134
      Cupredoxin; Cupredoxin superfamily

    2. XM_005172098.5 → XP_005172155.1  protein-arginine deiminase type-2 isoform X2

      UniProtKB/TrEMBL
      A0A8M2BJY4
      Conserved Domains (3) summary
      pfam03068
      Location:294 → 672
      PAD; Protein-arginine deiminase (PAD)
      pfam08527
      Location:110 → 280
      PAD_M; Protein-arginine deiminase (PAD) middle domain
      cl19115
      Location:1 → 108
      Cupredoxin; Cupredoxin superfamily

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394667.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      324206..328612
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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