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Setd2 SET domain containing 2, histone lysine methyltransferase [ Rattus norvegicus (Norway rat) ]

Gene ID: 316013, updated on 15-May-2025
Official Symbol
Setd2provided by RGD
Official Full Name
SET domain containing 2, histone lysine methyltransferaseprovided by RGD
Primary source
RGD:1305576
See related
Ensembl:ENSRNOG00000020915 AllianceGenome:RGD:1305576
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable alpha-tubulin binding activity and histone H3K36 methyltransferase activity. Involved in positive regulation of ossification; response to alkaloid; and response to metal ion. Predicted to be active in chromosome and nucleus. Human ortholog(s) of this gene implicated in autosomal dominant intellectual developmental disorder 70; clear cell renal cell carcinoma; gastrointestinal system cancer (multiple); lung disease (multiple); and malignant mesothelioma (multiple). Orthologous to human SETD2 (SET domain containing 2, histone lysine methyltransferase). [provided by Alliance of Genome Resources, May 2025]
Expression
Biased expression in Thymus (RPKM 333.0), Spleen (RPKM 295.5) and 9 other tissues See more
Orthologs
human mouse all
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See Setd2 in Genome Data Viewer
Location:
8q32
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (119390207..119475863)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (110511808..110597475)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (118802478..118888224)

Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene kelch-like family member 18 Neighboring gene neutrophilic granule protein Neighboring gene kinesin family member 9 Neighboring gene uncharacterized LOC108351781 Neighboring gene neurotrophin receptor associated death domain Neighboring gene neurobeachin-like 2

Go to nucleotide: Graphics FASTA GenBank

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Related articles in PubMed

  1. Genetic Determinants of EGFR-Driven Lung Cancer Growth and Therapeutic Response In Vivo. Foggetti G, et al. Cancer Discov, 2021 Jul. PMID 33707235, Free PMC Article
  2. Genomic characterization of sarcomatoid transformation in clear cell renal cell carcinoma. Bi M, et al. Proc Natl Acad Sci U S A, 2016 Feb 23. PMID 26864202, Free PMC Article
  3. Whole-exome sequencing and immune profiling of early-stage lung adenocarcinoma with fully annotated clinical follow-up. Kadara H, et al. Ann Oncol, 2017 Jan 1. PMID 27687306, Free PMC Article
  4. High-density array-CGH with targeted NGS unmask multiple noncontiguous minute deletions on chromosome 3p21 in mesothelioma. Yoshikawa Y, et al. Proc Natl Acad Sci U S A, 2016 Nov 22. PMID 27834213, Free PMC Article
  5. Identification and Verification of Potential Therapeutic Target Genes in Berberine-Treated Zucker Diabetic Fatty Rats through Bioinformatics Analysis. Wu YS, et al. PLoS One, 2016. PMID 27846294, Free PMC Article

See all (39) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. N6-methyladenosine modification in trophoblasts promotes circSETD2 expression, inhibits miR-181a-5p, and elevates MCL1 transcription to reduce apoptosis of trophoblasts.
    Title: N6-methyladenosine modification in trophoblasts promotes circSETD2 expression, inhibits miR-181a-5p, and elevates MCL1 transcription to reduce apoptosis of trophoblasts.
  2. The significance of this study lies in reporting the significantly reduced expression of two proteins: histone-lysine N-methyltransferase (SETD2) and sorting nexin-9 (SNX9) at very early stage (13 weeks) of tumorigenesis, while the full-fledged tumors developed after 6 months.
    Title: Reduced expression of SETD2 and SNX9 proteins in chemically induced mammary tumorigenesis in Wistar rats: a prognostic histological and proteomic study.
Submit: New GeneRIF Correction

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables alpha-tubulin binding ISO
Inferred from Sequence Orthology
more info
  
enables histone H3K36 methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone H3K36 methyltransferase activity ISO
Inferred from Sequence Orthology
more info
  
enables histone H3K36 trimethyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables protein-lysine N-methyltransferase activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within angiogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within cell migration involved in vasculogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within coronary vasculature morphogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in defense response to virus ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within embryonic cranial skeleton morphogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within embryonic organ development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within embryonic placenta morphogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in endodermal cell differentiation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within forebrain development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within mesoderm morphogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in methylation IEA
Inferred from Electronic Annotation
more info
  
involved_in microtubule cytoskeleton organization involved in mitosis ISO
Inferred from Sequence Orthology
more info
  
involved_in mismatch repair ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within morphogenesis of a branching structure ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within neural tube closure ISO
Inferred from Sequence Orthology
more info
  
involved_in nucleosome organization ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within peptidyl-lysine trimethylation ISO
Inferred from Sequence Orthology
more info
  
involved_in peptidyl-lysine trimethylation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within pericardium development ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of autophagy ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of interferon-alpha production ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of ossification IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of cytokinesis ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of double-strand break repair via homologous recombination ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of gene expression IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within regulation of gene expression ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of mRNA export from nucleus ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of protein localization to chromatin ISO
Inferred from Sequence Orthology
more info
  
involved_in response to alkaloid IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to metal ion IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to type I interferon ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within stem cell development ISO
Inferred from Sequence Orthology
more info
  
involved_in stem cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in transcription elongation by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within vasculogenesis ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in chromosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in chromosome ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
Preferred Names
histone-lysine N-methyltransferase SETD2
NP_001388092.1
XP_038937538.1
XP_063121702.1
XP_063121703.1

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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_001401163.1 → NP_001388092.1  histone-lysine N-methyltransferase SETD2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000008
    UniProtKB/TrEMBL
    A0A8I6A709
    Related
    ENSRNOP00000097369.2, ENSRNOT00000113014.2

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086026.1 Reference GRCr8

    Range
    119390207..119475863
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063265632.1 → XP_063121702.1  histone-lysine N-methyltransferase SETD2 isoform X2

    UniProtKB/TrEMBL
    A0A8I6A709

  2. XM_063265633.1 → XP_063121703.1  histone-lysine N-methyltransferase SETD2 isoform X3

    UniProtKB/TrEMBL
    A0A8I6A709, A0A8I6AUV5
    Related
    ENSRNOP00000078840.2, ENSRNOT00000114303.2

  3. XM_039081610.2 → XP_038937538.1  histone-lysine N-methyltransferase SETD2 isoform X1

    UniProtKB/TrEMBL
    A0A0G2KB10, A0A8I6A709
    Related
    ENSRNOP00000075606.1, ENSRNOT00000087154.3
    Conserved Domains (4) summary
    smart00570
    Location:1455 → 1509
    AWS; associated with SET domains
    cd19172
    Location:1509 → 1650
    SET_SETD2; SET domain (including post-SET domain) found in SET domain-containing protein 2 (SETD2) and similar proteins
    pfam00397
    Location:2350 → 2379
    WW; WW domain
    pfam08236
    Location:2426 → 2514
    SRI; SRI (Set2 Rpb1 interacting) domain

RNA

  1. XR_010053985.1 RNA Sequence

  2. XR_010053984.1 RNA Sequence

  3. XR_010053986.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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