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    nitr4a novel immune-type receptor 4a [ Danio rerio (zebrafish) ]

    Gene ID: 60652, updated on 4-Jan-2025

    Summary

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    Official Symbol
    nitr4aprovided by ZNC
    Official Full Name
    novel immune-type receptor 4aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-001106-11
    See related
    Ensembl:ENSDARG00000075288 AllianceGenome:ZFIN:ZDB-GENE-001106-11
    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
    nitr; nitr4a_9; dZ105L16.2; dZ105L16.3; dZ105L16.8
    Summary
    Predicted to be involved in response to bacterium. Predicted to be located in plasma membrane. Is expressed in intestine; kidney; and spleen. Orthologous to human SIRPB2 (signal regulatory protein beta 2). [provided by Alliance of Genome Resources, Jan 2025]
    Orthologs
    all
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    Genomic context

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    See nitr4a in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (17578061..17582292, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (17326085..17330335, complement)

    Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene novel immune-type receptor 3d Neighboring gene novel immune-type receptor 1n Neighboring gene novel immune-type receptor 5 Neighboring gene novel immune-type receptor 4b, pseudogene Neighboring gene novel immune-type receptor 6a Neighboring gene novel immune-type receptor 6b

    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. Evolution of the zebrafish model: from development to immunity and infectious disease. Phelps HA, et al. Zebrafish, 2005. PMID 18248169
    2. Developmental and tissue-specific expression of NITRs. Yoder JA, et al. Immunogenetics, 2010 Feb. PMID 20012603, Free PMC Article
    3. The medaka novel immune-type receptor (NITR) gene clusters reveal an extraordinary degree of divergence in variable domains. Desai S, et al. BMC Evol Biol, 2008 Jun 19. PMID 18565225, 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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    involved_in response to bacterium IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    novel immune-type receptor 4a

    NCBI Reference Sequences (RefSeq)

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    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_131654.1 → NP_571729.1  novel immune-type receptor 4a isoform 1 precursor

      See identical proteins and their annotated locations for NP_571729.1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (1, also known as nitr4a-1 allele) differs in the 3' UTR compared to variant 6, and encodes isoform 1. Variants 1, 2, 3 and 6 encode isoforms of the same length that differ in their amino acid composition.
      Source sequence(s)
      AF318402
      UniProtKB/TrEMBL
      Q8UV83, Q90Z85
      Conserved Domains (3) summary
      smart00410
      Location:29 → 127
      IG_like; Immunoglobulin like
      pfam07686
      Location:144 → 246
      V-set; Immunoglobulin V-set domain
      cl11960
      Location:24 → 134
      Ig; Immunoglobulin domain

    2. NM_131655.1 → NP_571730.1  novel immune-type receptor 4a isoform 2 precursor

      See identical proteins and their annotated locations for NP_571730.1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (2, also known as nitr4a-2 allele) differs in the 3' UTR compared to variant 6, and encodes isoform 2. Variants 1, 2, 3 and 6 encode isoforms of the same length that differ in their amino acid composition.
      Source sequence(s)
      AF318403
      UniProtKB/TrEMBL
      Q8UV83, Q90Z84
      Conserved Domains (3) summary
      smart00410
      Location:146 → 246
      IG_like; Immunoglobulin like
      pfam07686
      Location:144 → 246
      V-set; Immunoglobulin V-set domain
      cl11960
      Location:24 → 134
      Ig; Immunoglobulin domain

    3. NM_131656.1 → NP_571731.1  novel immune-type receptor 4a isoform 3 precursor

      See identical proteins and their annotated locations for NP_571731.1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (3, also known as nitr4a-3 allele) differs in the 3' UTR compared to variant 6, and encodes isoform 3. Variants 1, 2, 3 and 6 encode isoforms of the same length that differ in their amino acid composition.
      Source sequence(s)
      AF318404
      UniProtKB/TrEMBL
      Q8UV83, Q90Z83
      Conserved Domains (3) summary
      smart00410
      Location:29 → 127
      IG_like; Immunoglobulin like
      pfam07686
      Location:144 → 246
      V-set; Immunoglobulin V-set domain
      cl11960
      Location:24 → 134
      Ig; Immunoglobulin domain

    4. NM_131657.1 → NP_571732.1  novel immune-type receptor 4a isoform 4 precursor

      See identical proteins and their annotated locations for NP_571732.1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (4, also known as nitr4a-4 allele) differs in the 3' UTR and contains an alternate in-frame splice site in the 5' coding region compared to variant 6. The encoded isoform (4) is shorter than isoform 6. Variants 4 and 5 encode isoforms of the same length that differ in their amino acid composition.
      Source sequence(s)
      AF318405
      UniProtKB/TrEMBL
      Q8UV83, Q90Z82
      Conserved Domains (3) summary
      smart00410
      Location:29 → 127
      IG_like; Immunoglobulin like
      pfam07686
      Location:128 → 227
      V-set; Immunoglobulin V-set domain
      cl11960
      Location:24 → 134
      Ig; Immunoglobulin domain

    5. NM_131658.1 → NP_571733.1  novel immune-type receptor 4a isoform 5 precursor

      See identical proteins and their annotated locations for NP_571733.1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (5, also known as nitr4a-5 allele) differs in the 3' UTR and contains an alternate in-frame splice site in the 5' coding region compared to variant 6. The encoded isoform (5) is shorter than isoform 6. Variants 4 and 5 encode isoforms of the same length that differ in their amino acid composition.
      Source sequence(s)
      AF318406
      UniProtKB/TrEMBL
      Q8UV83, Q90Z81
      Conserved Domains (3) summary
      smart00410
      Location:29 → 127
      IG_like; Immunoglobulin like
      pfam07686
      Location:128 → 227
      V-set; Immunoglobulin V-set domain
      cl11960
      Location:24 → 134
      Ig; Immunoglobulin domain

    6. NM_198344.3 → NP_938158.3  novel immune-type receptor 4a isoform 6 precursor

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (6) represents the longest transcript and encodes isoform 6. Variants 1, 2, 3 and 6 encode isoforms of the same length that differ in their amino acid composition.
      Source sequence(s)
      CU672228
      UniProtKB/TrEMBL
      Q8UV83
      Related
      ENSDARP00000111461.2, ENSDART00000131164.3
      Conserved Domains (1) summary
      cl11960
      Location:24 → 134
      Ig; Immunoglobulin domain

    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_007118.7 Reference GRCz11 Primary Assembly

      Range
      17578061..17582292 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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