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    fubp1 far upstream element (FUSE) binding protein 1 [ Danio rerio (zebrafish) ]

    Gene ID: 406418, updated on 9-Dec-2024

    Summary

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    Official Symbol
    fubp1provided by ZNC
    Official Full Name
    far upstream element (FUSE) binding protein 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-2159
    See related
    Ensembl:ENSDARG00000029248 AllianceGenome:ZFIN:ZDB-GENE-040426-2159
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:66046; wu:fa92h11; wu:fb24h11; wu:fc26f06
    Summary
    Enables mRNA 3'-UTR binding activity. Acts upstream of or within regulation of gene expression. Predicted to be active in cytoplasm and nucleus. Human ortholog(s) of this gene implicated in hepatocellular carcinoma. Orthologous to human FUBP1 (far upstream element binding protein 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See fubp1 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (8649293..8663108)
    105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (8851274..8865103)

    Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene si:ch211-71m22.5 Neighboring gene uncharacterized LOC103909778 Neighboring gene si:ch211-71m22.3 Neighboring gene mitoguardin 1 Neighboring gene ubiquitin specific peptidase 33 Neighboring gene zinc finger, ZZ-type containing 3

    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. Far Upstream Element-Binding Protein 1 Binds the 3' Untranslated Region of PKD2 and Suppresses Its Translation. Zheng W, et al. J Am Soc Nephrol, 2016 Sep. PMID 26839368, Free PMC Article
    2. Conservation of a vitellogenin gene cluster in oviparous vertebrates and identification of its traces in the platypus genome. Babin PJ. Gene, 2008 Apr 30. PMID 18343608
    3. Genome wide analysis of 3' UTR sequence elements and proteins regulating mRNA stability during maternal-to-zygotic transition in zebrafish. Vejnar CE, et al. Genome Res, 2019 Jul. PMID 31227602, Free PMC Article
    4. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
    5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

    See all (8) 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 RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA 3'-UTR binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of gene expression IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    far upstream element-binding protein 1
    Names
    FUSE binding protein 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_213144.2 → NP_998309.1  far upstream element-binding protein 1

      See identical proteins and their annotated locations for NP_998309.1

      Status: VALIDATED

      Source sequence(s)
      CT027589
      UniProtKB/TrEMBL
      A0A8M1PEM8, Q6P2A9
      Related
      ENSDARP00000075883.3, ENSDART00000081442.4
      Conserved Domains (3) summary
      smart00322
      Location:378 → 445
      KH; K homology RNA-binding domain
      cd00105
      Location:91 → 153
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      pfam09005
      Location:605 → 620
      DUF1897; Domain of unknown function (DUF1897)

    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_007113.7 Reference GRCz11 Primary Assembly

      Range
      8649293..8663108
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068223635.1 → XP_068079736.1  far upstream element-binding protein 1 isoform X1

      Related
      ENSDARP00000150517.1, ENSDART00000186024.1

    2. XM_068223636.1 → XP_068079737.1  far upstream element-binding protein 1 isoform X2

    3. XM_009297500.4 → XP_009295775.1  far upstream element-binding protein 1 isoform X5

      UniProtKB/TrEMBL
      A0A8M3AW34
      Conserved Domains (3) summary
      smart00322
      Location:378 → 445
      KH; K homology RNA-binding domain
      cd00105
      Location:91 → 153
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      pfam09005
      Location:607 → 623
      DUF1897; Domain of unknown function (DUF1897)

    4. XM_068223638.1 → XP_068079739.1  far upstream element-binding protein 1 isoform X3

    5. XM_009297514.4 → XP_009295789.1  far upstream element-binding protein 1 isoform X4

      UniProtKB/TrEMBL
      A0A8M3AZ76
      Conserved Domains (3) summary
      smart00322
      Location:378 → 445
      KH; K homology RNA-binding domain
      cd00105
      Location:91 → 153
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      pfam09005
      Location:625 → 640
      DUF1897; Domain of unknown function (DUF1897)

    6. XM_009297503.4 → XP_009295778.1  far upstream element-binding protein 1 isoform X6

      UniProtKB/TrEMBL
      A0A8M3ANN4
      Conserved Domains (3) summary
      smart00322
      Location:378 → 445
      KH; K homology RNA-binding domain
      cd00105
      Location:91 → 153
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      pfam09005
      Location:602 → 618
      DUF1897; Domain of unknown function (DUF1897)

    7. XM_009297509.4 → XP_009295784.1  far upstream element-binding protein 1 isoform X7

      UniProtKB/TrEMBL
      A0A8M3B6R5
      Conserved Domains (3) summary
      smart00322
      Location:378 → 445
      KH; K homology RNA-binding domain
      cd00105
      Location:91 → 153
      KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
      pfam09005
      Location:600 → 615
      DUF1897; Domain of unknown function (DUF1897)
    Nucleotide Protein
    Heading Accession and Version

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