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    hoxa11b homeobox A11b [ Danio rerio (zebrafish) ]

    Gene ID: 30382, updated on 9-Dec-2024

    Summary

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    Official Symbol
    hoxa11bprovided by ZNC
    Official Full Name
    homeobox A11bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-990415-4
    See related
    Ensembl:ENSDARG00000007009 AllianceGenome:ZFIN:ZDB-GENE-990415-4
    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
    hoxa11; Hoxa-11; im:7142641
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in embryonic skeletal joint morphogenesis and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of DNA-templated transcription. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including central nervous system; chondroblast; mesenchyme; pectoral fin bud; and pectoral fin field. Human ortholog(s) of this gene implicated in radioulnar synostosis. Orthologous to human HOXA11 (homeobox A11). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See hoxa11b in Genome Data Viewer
    Location:
    chromosome: 16
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 16 NC_007127.7 (20904884..20906482)
    105 previous assembly GRCz10 (GCF_000002035.5) 16 NC_007127.6 (21099065..21100663)

    Chromosome 16 - NC_007127.7Genomic Context describing neighboring genes Neighboring gene 3-hydroxyisobutyrate dehydrogenase b Neighboring gene homeobox A13b Neighboring gene homeobox A10b Neighboring gene microRNA 196d

    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. A recombinogenic targeting method to modify large-inserts for cis-regulatory analysis in transgenic mice: construction and expression of a 100-kb, zebrafish Hoxa-11b-lacZ reporter gene. Chiu CH, et al. Dev Genes Evol, 2000 Feb. PMID 10664153
    2. The "fish-specific" Hox cluster duplication is coincident with the origin of teleosts. Crow KD, et al. Mol Biol Evol, 2006 Jan. PMID 16162861
    3. Expression of meis and hoxa11 in dipnoan and teleost fins provides new insights into the evolution of vertebrate appendages. Langellotto F, et al. Evodevo, 2018. PMID 29719716, Free PMC Article
    4. Expression of Hoxa-11 and Hoxa-13 in the pectoral fin of a basal ray-finned fish, Polyodon spathula: implications for the origin of tetrapod limbs. Metscher BD, et al. Evol Dev, 2005 May-Jun. PMID 15876191
    5. Bichir HoxA cluster sequence reveals surprising trends in ray-finned fish genomic evolution. Chiu CH, et al. Genome Res, 2004 Jan. PMID 14707166, Free PMC Article

    See all (38) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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 DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in embryonic skeletal joint morphogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    homeobox protein Hox-A11b
    Names
    homeo box A11b
    homeobox gene A-11
    hox-A11

    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_131147.1 → NP_571222.1  homeobox protein Hox-A11b

      See identical proteins and their annotated locations for NP_571222.1

      Status: PROVISIONAL

      Source sequence(s)
      AF287137
      UniProtKB/Swiss-Prot
      P79723, Q4PRA4, Q9DDU1
      UniProtKB/TrEMBL
      B3DHW9
      Related
      ENSDARP00000005174.4, ENSDART00000006043.6
      Conserved Domains (2) summary
      pfam00046
      Location:214 → 267
      Homeobox; Homeobox domain
      pfam12045
      Location:26 → 165
      DUF3528; Protein of unknown function (DUF3528)

    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_007127.7 Reference GRCz11 Primary Assembly

      Range
      20904884..20906482
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9DDU1.1 GenPept UniProtKB/Swiss-Prot:Q9DDU1

    Gene LinkOut

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

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