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

Gene ID: 180985, updated on 2-Nov-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, Nov 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
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