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si:dkey-220f10.4 si:dkey-220f10.4 [ Danio rerio (zebrafish) ]

Gene ID: 564717, updated on 12-Sep-2024

Summary

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Official Symbol
si:dkey-220f10.4provided by ZNC
Official Full Name
si:dkey-220f10.4provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-9651
See related
Ensembl:ENSDARG00000062902 AllianceGenome:ZFIN:ZDB-GENE-030131-9651
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
Also known as
cb105; sb:cb105
Summary
Predicted to be involved in protein localization to cilium. Predicted to be active in cilium. Is expressed in epiphysis; retina; and retinal photoreceptor layer. Orthologous to human TULP2 (TUB like protein 2). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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See si:dkey-220f10.4 in Genome Data Viewer
Location:
chromosome: 12
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 12 NC_007123.7 (20618358..20625916)
105 previous assembly GRCz10 (GCF_000002035.5) 12 NC_007123.6 (20496442..20504042)

Chromosome 12 - NC_007123.7Genomic Context describing neighboring genes Neighboring gene monocarboxylate transporter 7 Neighboring gene arylsulfatase G Neighboring gene sorting nexin 11 Neighboring gene syntaxin 4 Neighboring gene calcium binding and coiled-coil domain 2

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 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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Homology

Gene Ontology Provided by ZFIN

Process Evidence Code Pubs
involved_in protein localization to cilium IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cilium IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
tubby protein homolog; uncharacterized protein LOC564717

NCBI Reference Sequences (RefSeq)

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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_007123.7 Reference GRCz11 Primary Assembly

    Range
    20618358..20625916
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_003199599.6 → XP_003199647.1  tubby protein homolog isoform X1

    UniProtKB/TrEMBL
    A0A8M1RSX2, F1QQA5, Q1L8C0
    Related
    ENSDARP00000078442.5, ENSDART00000084007.7
    Conserved Domains (2) summary
    pfam01167
    Location:309 → 549
    Tub; Tub family
    pfam16322
    Location:13 → 65
    Tub_N; Tubby N-terminal

  2. XM_005160370.5 → XP_005160427.1  tubby protein homolog isoform X2

    UniProtKB/TrEMBL
    A0A8M2B775
    Conserved Domains (2) summary
    pfam01167
    Location:308 → 548
    Tub; Tub family
    pfam16322
    Location:13 → 65
    Tub_N; Tubby N-terminal
Nucleotide Protein Strain
Heading Accession and Version

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