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    hcfc1b host cell factor C1b [ Danio rerio (zebrafish) ]

    Gene ID: 565206, updated on 9-Dec-2024

    Summary

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    Official Symbol
    hcfc1bprovided by ZNC
    Official Full Name
    host cell factor C1bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-2411
    See related
    Ensembl:ENSDARG00000012519 AllianceGenome:ZFIN:ZDB-GENE-030131-2411
    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
    fc07b09; fe17f08; wu:fc07b09; wu:fe17f08
    Summary
    Predicted to enable transcription coactivator activity. Acts upstream of or within chondrocyte differentiation and embryonic viscerocranium morphogenesis. Predicted to be part of histone methyltransferase complex. Human ortholog(s) of this gene implicated in methylmalonic acidemia and homocysteinemia cblX type. Orthologous to human HCFC1 (host cell factor C1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See hcfc1b in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 8 NC_007119.7 (7506827..7567815, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 8 NC_007119.6 (7488096..7549084, complement)

    Chromosome 8 - NC_007119.7Genomic Context describing neighboring genes Neighboring gene GATA binding protein 1b Neighboring gene cyclin dependent kinase 20 Neighboring gene interleukin-1 receptor-associated kinase 1 Neighboring gene methyl CpG binding protein 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
    • 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. Missense and nonsense mutations of the zebrafish hcfc1a gene result in contrasting mTor and radial glial phenotypes. Castro VL, et al. Gene, 2023 May 15. PMID 36804358, Free PMC Article
    2. The first mecp2-null zebrafish model shows altered motor behaviors. Pietri T, et al. Front Neural Circuits, 2013. PMID 23874272, Free PMC Article
    3. Hcfc1b, a zebrafish ortholog of HCFC1, regulates craniofacial development by modulating mmachc expression. Quintana AM, et al. Dev Biol, 2014 Dec 1. PMID 25281006, Free PMC Article
    4. Identification of the zebrafish maternal and paternal transcriptomes. Harvey SA, et al. Development, 2013 Jul. PMID 23720042, Free PMC Article
    5. 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

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. HCFC1 plays a role in craniofacial development, which is in part mediated through the regulation of MMACHC expression
      Title: Hcfc1b, a zebrafish ortholog of HCFC1, regulates craniofacial development by modulating mmachc expression.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within chondrocyte differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within embryonic viscerocranium morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of histone methyltransferase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    host cell factor 1b

    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_001128537.1 → NP_001122009.1  host cell factor 1b

      Status: PROVISIONAL

      Source sequence(s)
      BX571687
      UniProtKB/TrEMBL
      A0A8M9PQY4, A0A8M9Q3I3, A8WIP5
      Related
      ENSDARP00000121690.1, ENSDART00000132536.2
      Conserved Domains (4) summary
      sd00038
      Location:194 → 247
      Kelch; KELCH repeat [structural motif]
      cl25496
      Location:1138 → 1484
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      cl26061
      Location:9 → 327
      PLN02193; nitrile-specifier protein
      cl26464
      Location:397 → 609
      Atrophin-1; Atrophin-1 family

    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_007119.7 Reference GRCz11 Primary Assembly

      Range
      7506827..7567815 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005166699.5 → XP_005166756.1  host cell factor 1b isoform X2

      UniProtKB/TrEMBL
      A0A8M2BE35, A0A8M9Q3I3
      Conserved Domains (5) summary
      PLN02153
      Location:9 → 327
      PLN02153; epithiospecifier protein
      cd00063
      Location:1847 → 1951
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      sd00038
      Location:194 → 247
      Kelch; KELCH repeat [structural motif]
      pfam01344
      Location:26 → 63
      Kelch_1; Kelch motif
      pfam13415
      Location:209 → 257
      Kelch_3; Galactose oxidase, central domain

    2. XM_021478282.2 → XP_021333957.1  host cell factor 1b isoform X1

      UniProtKB/TrEMBL
      A0A8M9PQY4, A0A8M9Q3I3, A8WIP5
      Conserved Domains (4) summary
      sd00038
      Location:194 → 247
      Kelch; KELCH repeat [structural motif]
      cl25496
      Location:1138 → 1484
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      cl26061
      Location:9 → 327
      PLN02193; nitrile-specifier protein
      cl26464
      Location:397 → 609
      Atrophin-1; Atrophin-1 family
    Nucleotide Protein
    Heading Accession and Version

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