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si:dkey-92j12.5 si:dkey-92j12.5 [ Danio rerio (zebrafish) ]

Gene ID: 560912, updated on 11-Apr-2024

Summary

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Official Symbol
si:dkey-92j12.5provided by ZNC
Official Full Name
si:dkey-92j12.5provided by ZNC
Primary source
ZFIN:ZDB-GENE-090313-354
See related
Ensembl:ENSDARG00000094677 AllianceGenome:ZFIN:ZDB-GENE-090313-354
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Summary
Predicted to be involved in microtubule organizing center organization; regulation of microtubule cytoskeleton organization; and tight junction assembly. Predicted to be active in several cellular components, including apical part of cell; bicellular tight junction; and plasma membrane. [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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Location:
chromosome: 1
Exon count:
42
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (23161231..23240763)
105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (22470519..22549982)

Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene general transcription factor IIE, polypeptide 2, beta Neighboring gene small integral membrane protein 18 Neighboring gene adhesion G protein-coupled receptor L3.1 Neighboring gene replication factor C (activator 1) 1 Neighboring gene ribosomal protein L9

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. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  2. 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

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Process Evidence Code Pubs
acts_upstream_of_or_within retina development in camera-type eye IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in tight junction assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in apical part of cell IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in bicellular tight junction IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
multiple PDZ domain protein; si:dkey-92j12.5

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007112.7 Reference GRCz11 Primary Assembly

    Range
    23161231..23240763
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021476353.1 → XP_021332028.1  multiple PDZ domain protein isoform X1

    UniProtKB/TrEMBL
    A0A2R8RR49, A0A8M9PY69
    Related
    ENSDARP00000151048.1, ENSDART00000188428.1
    Conserved Domains (4) summary
    smart00228
    Location:137 → 220
    PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
    cd00992
    Location:1771 → 1853
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    pfam09045
    Location:3 → 58
    L27_2
    pfam16667
    Location:1367 → 1424
    MPDZ_u10; Unstructured region 10 on multiple PDZ protein

  2. XM_021476357.1 → XP_021332032.1  multiple PDZ domain protein isoform X2

    UniProtKB/TrEMBL
    A0A8M9PKN6
    Conserved Domains (4) summary
    smart00228
    Location:137 → 220
    PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
    cd00992
    Location:1751 → 1833
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    pfam09045
    Location:3 → 58
    L27_2
    pfam16667
    Location:1347 → 1404
    MPDZ_u10; Unstructured region 10 on multiple PDZ protein
Nucleotide Protein
Heading Accession and Version

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