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    syd-9 Zinc finger protein syd-9 [ Caenorhabditis elegans ]

    Gene ID: 180985, updated on 9-Dec-2024

    Summary

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    Official Symbol
    syd-9
    Official Full Name
    Zinc finger protein syd-9
    Primary source
    WormBase:WBGene00044068
    Locus tag
    CELE_ZK867.1
    See related
    AllianceGenome:WB:WBGene00044068
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Caenorhabditis elegans (strain: Bristol N2)
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Located in nuclear speck. Is expressed in muscle cell and neurons. [provided by Alliance of Genome Resources, Dec 2024]
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    Genomic context

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    See syd-9 in Genome Data Viewer
    Location:
    chromosome: X
    Exon count:
    9
    Sequence:
    Chromosome: X; NC_003284.9 (7218097..7226827)

    Chromosome X - NC_003284.9Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene putative arginine kinase F46H5.3 Neighboring gene ncRNA Neighboring gene AMPK1_CBM domain-containing protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003284.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. The C2H2 zinc-finger protein SYD-9 is a putative posttranscriptional regulator for synaptic transmission. Wang Y, et al. Proc Natl Acad Sci U S A, 2006 Jul 5. PMID 16803962, Free PMC Article
    2. Functional transcriptomics of a migrating cell in Caenorhabditis elegans. Schwarz EM, et al. Proc Natl Acad Sci U S A, 2012 Oct 2. PMID 22991463, Free PMC Article
    3. A 4D single-cell protein atlas of transcription factors delineates spatiotemporal patterning during embryogenesis. Ma X, et al. Nat Methods, 2021 Aug. PMID 34312566
    4. C. elegans ORFeome version 1.1: experimental verification of the genome annotation and resource for proteome-scale protein expression. Reboul J, et al. Nat Genet, 2003 May. PMID 12679813
    5. SH3 interactome conserves general function over specific form. Xin X, et al. Mol Syst Biol, 2013. PMID 23549480, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by WormBase

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nuclear speck IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nuclear speck 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
    Zinc finger protein syd-9
    NP_001362161.1
    • Confirmed by transcript evidence
    NP_001362162.1
    • Confirmed by transcript evidence
    NP_001379833.1
    • Confirmed by transcript evidence
    NP_509213.1
    • Confirmed by transcript evidence
    NP_509214.2
    • Confirmed by transcript evidence

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_003284.9 Reference assembly

      Range
      7218097..7226827
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001392799.1 → NP_001379833.1  Zinc finger protein syd-9 [Caenorhabditis elegans]

      Status: REVIEWED

    2. NM_001375059.1 → NP_001362162.1  Zinc finger protein syd-9 [Caenorhabditis elegans]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A0A5E4LWX4, A0A5E4M3Q4, Q95PV3, Q95PV5, Q95PV6
      Conserved Domains (2) summary
      sd00017
      Location:22 → 43
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:65 → 87
      zf-C2H2; Zinc finger, C2H2 type

    3. NM_076813.8 → NP_509214.2  Zinc finger protein syd-9 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_509214.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q95PV6
      Conserved Domains (3) summary
      PHA00733
      Location:21 → 66
      PHA00733; hypothetical protein
      sd00017
      Location:22 → 43
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:48 → 70
      zf-C2H2; Zinc finger, C2H2 type

    4. NM_076812.7 → NP_509213.1  Zinc finger protein syd-9 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_509213.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q95PV5
      Conserved Domains (2) summary
      sd00017
      Location:22 → 43
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:65 → 87
      zf-C2H2; Zinc finger, C2H2 type

    5. NM_001375061.2 → NP_001362161.1  Zinc finger protein syd-9 [Caenorhabditis elegans]

      Status: REVIEWED

      Conserved Domains (3) summary
      PHA00733
      Location:21 → 66
      PHA00733; hypothetical protein
      sd00017
      Location:22 → 43
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:48 → 70
      zf-C2H2; Zinc finger, C2H2 type
    Nucleotide Protein
    Heading Accession and Version

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