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    tmf1 TATA element modulatory factor 1 [ Danio rerio (zebrafish) ]

    Gene ID: 445128, updated on 9-Dec-2024

    Summary

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    Official Symbol
    tmf1provided by ZNC
    Official Full Name
    TATA element modulatory factor 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040801-25
    See related
    Ensembl:ENSDARG00000057997 AllianceGenome:ZFIN:ZDB-GENE-040801-25
    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:100899
    Summary
    Predicted to be active in Golgi apparatus and endoplasmic reticulum. Orthologous to human TMF1 (TATA element modulatory factor 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See tmf1 in Genome Data Viewer
    Location:
    chromosome: 11
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 11 NC_007122.7 (17757344..17782931, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 11 NC_007122.6 (17623385..17648296, complement)

    Chromosome 11 - NC_007122.7Genomic Context describing neighboring genes Neighboring gene TAFA chemokine like family member 4b Neighboring gene EGF domain-specific O-linked N-acetylglucosamine (GlcNAc) transferase Neighboring gene ubiquitin-like modifier activating enzyme 3 Neighboring gene E3 SUMO-protein ligase ZBED1-like

    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. The Golgi matrix protein giantin is required for normal cilia function in zebrafish. Bergen DJM, et al. Biol Open, 2017 Aug 15. PMID 28546340, Free PMC Article
    2. Evolution of JAK-STAT pathway components: mechanisms and role in immune system development. Liongue C, et al. PLoS One, 2012. PMID 22412924, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    is_active_in Golgi apparatus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    TATA element modulatory factor

    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_001003522.2 → NP_001003522.2  TATA element modulatory factor

      Status: VALIDATED

      Source sequence(s)
      AL954814, EB929950
      UniProtKB/TrEMBL
      A0A8M1N1L0, F1REB9
      Related
      ENSDARP00000075216.4, ENSDART00000080770.6
      Conserved Domains (4) summary
      COG1842
      Location:626 → 882
      PspA; Phage shock protein A [Transcription, Signal transduction mechanisms]
      pfam05087
      Location:567 → 786
      Rota_VP2; Rotavirus VP2 protein
      pfam12325
      Location:1022 → 1129
      TMF_TATA_bd; TATA element modulatory factor 1 TATA binding
      pfam12329
      Location:577 → 650
      TMF_DNA_bd; TATA element modulatory factor 1 DNA binding

    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_007122.7 Reference GRCz11 Primary Assembly

      Range
      17757344..17782931 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021479595.2 → XP_021335270.1  TATA element modulatory factor isoform X1

      UniProtKB/TrEMBL
      A0A8M9QLK8
      Conserved Domains (3) summary
      pfam04111
      Location:478 → 570
      APG6; Autophagy protein Apg6
      pfam12325
      Location:1017 → 1128
      TMF_TATA_bd; TATA element modulatory factor 1 TATA binding
      cl25732
      Location:537 → 917
      SMC_N; RecF/RecN/SMC N terminal domain

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394813.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      117030..137894 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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