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cdkal1 CDK5 regulatory subunit associated protein 1-like 1 [ Danio rerio (zebrafish) ]

Gene ID: 393600, updated on 9-Dec-2024

Summary

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Official Symbol
cdkal1provided by ZNC
Official Full Name
CDK5 regulatory subunit associated protein 1-like 1provided by ZNC
Primary source
ZFIN:ZDB-GENE-040426-1443
See related
AllianceGenome:ZFIN:ZDB-GENE-040426-1443
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zgc:65864
Summary
Predicted to enable N6-threonylcarbomyladenosine methylthiotransferase activity. Acts upstream of or within pancreas regeneration and type B pancreatic cell development. Predicted to be located in endoplasmic reticulum membrane. Predicted to be active in endoplasmic reticulum. Human ortholog(s) of this gene implicated in diabetes mellitus; diabetic retinopathy; gestational diabetes; and type 2 diabetes mellitus. Orthologous to human CDKAL1 (CDK5 regulatory subunit associated protein 1 like 1). [provided by Alliance of Genome Resources, Dec 2024]
Annotation information
Annotation category: partial on reference assembly
Orthologs
human mouse all
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Genomic context

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See cdkal1 in Genome Data Viewer
Location:
chromosome: 16
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 16 NC_007127.7 (1422..53136)
105 previous assembly GRCz10 (GCF_000002035.5) 16 NC_007127.6 (1470..15105)

Chromosome 16 - NC_007127.7Genomic Context describing neighboring genes Neighboring gene SRY-box transcription factor 4b Neighboring gene si:ch211-201o1.1

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. NCK-associated protein 1 like (nckap1l) minor splice variant regulates intrahepatic biliary network morphogenesis. Ghaffari K, et al. PLoS Genet, 2021 Mar. PMID 33739979, Free PMC Article
  2. Inhibition of Cdk5 Promotes β-Cell Differentiation From Ductal Progenitors. Liu KC, et al. Diabetes, 2018 Jan. PMID 28986398, Free PMC Article
  3. Long-range gene regulation links genomic type 2 diabetes and obesity risk regions to HHEX, SOX4, and IRX3. Ragvin A, et al. Proc Natl Acad Sci U S A, 2010 Jan 12. PMID 20080751, Free PMC Article
  4. A live zebrafish-based screening system for human nuclear receptor ligand and cofactor discovery. Tiefenbach J, et al. PLoS One, 2010 Mar 22. PMID 20339547, Free PMC Article
  5. Assignment of Functional Relevance to Genes at Type 2 Diabetes-Associated Loci Through Investigation of β-Cell Mass Deficits. O'Hare EA, et al. Mol Endocrinol, 2016 Apr. PMID 26963759, Free PMC Article

See all (8) 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

Clone Names

  • MGC65864

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables 4 iron, 4 sulfur cluster binding IEA
Inferred from Electronic Annotation
more info
  
enables N6-threonylcarbomyladenosine methylthiotransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables N6-threonylcarbomyladenosine methylthiotransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables catalytic activity IEA
Inferred from Electronic Annotation
more info
  
enables iron-sulfur cluster binding IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables methylthiotransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables tRNA (N(6)-L-threonylcarbamoyladenosine(37)-C(2))-methylthiotransferase IEA
Inferred from Electronic Annotation
more info
  
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within endocrine pancreas development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within pancreas regeneration IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in tRNA methylthiolation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within tRNA methylthiolation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within tRNA modification IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within tRNA processing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within type B pancreatic cell development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
threonylcarbamoyladenosine tRNA methylthiotransferase
Names
tRNA-t(6)A37 methylthiotransferase
NP_956921.1

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_200627.1 → NP_956921.1  threonylcarbamoyladenosine tRNA methylthiotransferase

    See identical proteins and their annotated locations for NP_956921.1

    Status: PROVISIONAL

    Source sequence(s)
    BC057248
    UniProtKB/Swiss-Prot
    Q6PG34
    Conserved Domains (3) summary
    cd01335
    Location:203 → 400
    Radical_SAM; Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster. ...
    TIGR01578
    Location:60 → 487
    MiaB-like-B; MiaB-like tRNA modifying enzyme, archaeal-type
    pfam00919
    Location:60 → 139
    UPF0004; Uncharacterized protein family UPF0004

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_007127.7 Reference GRCz11 Primary Assembly

    Range
    1422..53136
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6PG34.1 GenPept UniProtKB/Swiss-Prot:Q6PG34

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