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setd5 SET domain containing 5 [ Danio rerio (zebrafish) ]

Gene ID: 570278, updated on 27-Mar-2024

Summary

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Official Symbol
setd5provided by ZNC
Official Full Name
SET domain containing 5provided by ZNC
Primary source
ZFIN:ZDB-GENE-080523-1
See related
AllianceGenome:ZFIN:ZDB-GENE-080523-1
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
Acts upstream of or within heart development and larval locomotory behavior. Is expressed in head. Human ortholog(s) of this gene implicated in autosomal dominant non-syndromic intellectual disability 23. Orthologous to human SETD5 (SET domain containing 5). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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See setd5 in Genome Data Viewer
Location:
chromosome: 6
Exon count:
25
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (21795814..21855170, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (19735594..19794941, complement)

Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene myotubularin related protein 14 Neighboring gene LHFPL tetraspan subfamily member 4a Neighboring gene si:dkey-19e4.5 Neighboring gene plexin b1b

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. CRISPR/Cas9-Induced Inactivation of the Autism-Risk Gene setd5 Leads to Social Impairments in Zebrafish. Gabellini C, et al. Int J Mol Sci, 2022 Dec 22. PMID 36613611, Free PMC Article
  2. SETD5 Regulates Chromatin Methylation State and Preserves Global Transcriptional Fidelity during Brain Development and Neuronal Wiring. Sessa A, et al. Neuron, 2019 Oct 23. PMID 31515109
  3. Large-scale discovery of novel genetic causes of developmental disorders. Deciphering Developmental Disorders Study. Nature, 2015 Mar 12. PMID 25533962, Free PMC Article
  4. Genome-wide survey and developmental expression mapping of zebrafish SET domain-containing genes. Sun XJ, et al. PLoS One, 2008 Jan 30. PMID 18231586, Free PMC Article
  5. The Kdm/Kmt gene families in the self-fertilizing mangrove rivulus fish, Kryptolebias marmoratus, suggest involvement of histone methylation machinery in development and reproduction. Fellous A, et al. Gene, 2019 Mar 1. PMID 30458291

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. CRISPR/Cas9-Induced Inactivation of the Autism-Risk Gene setd5 Leads to Social Impairments in Zebrafish.
    Title: CRISPR/Cas9-Induced Inactivation of the Autism-Risk Gene setd5 Leads to Social Impairments in Zebrafish.
  2. Setd5 inactivation in zebrafish equally affects genome-wide levels of H3K36me3 on active gene bodies. setd5 knockdown affected the fish larvae morphology and caused mild to strong phenotypical alterations, including small head and cardiac edemas.
    Title: SETD5 Regulates Chromatin Methylation State and Preserves Global Transcriptional Fidelity during Brain Development and Neuronal Wiring.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables methylated histone binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within heart development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within larval locomotory behavior IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of Rpd3L-Expanded complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of Set3 complex IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
SET domain-containing protein 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_007117.7 Reference GRCz11 Primary Assembly

    Range
    21795814..21855170 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005166241.4 → XP_005166298.1  SET domain-containing protein 5 isoform X5

    UniProtKB/TrEMBL
    A0A8M2BDQ3
    Conserved Domains (1) summary
    smart00317
    Location:336 → 444
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

  2. XM_021477087.1 → XP_021332762.1  SET domain-containing protein 5 isoform X3

    UniProtKB/TrEMBL
    A0A8M9PMQ3
    Conserved Domains (1) summary
    smart00317
    Location:336 → 444
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

  3. XM_693742.8 → XP_698834.4  SET domain-containing protein 5 isoform X4

    UniProtKB/TrEMBL
    A0A8N7URF0
    Conserved Domains (1) summary
    smart00317
    Location:346 → 454
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

  4. XM_021477086.1 → XP_021332761.1  SET domain-containing protein 5 isoform X2

    UniProtKB/TrEMBL
    A0A8M9QAX0
    Conserved Domains (1) summary
    smart00317
    Location:346 → 454
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

  5. XM_021477085.1 → XP_021332760.1  SET domain-containing protein 5 isoform X1

    UniProtKB/TrEMBL
    A0A8M9QFY2
    Conserved Domains (1) summary
    smart00317
    Location:346 → 454
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
Nucleotide Protein Strain
Heading Accession and Version

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