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Setd4 SET domain containing 4 [ Mus musculus (house mouse) ]

Gene ID: 224440, updated on 28-Mar-2023

Summary

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Official Symbol
Setd4provided by MGI
Official Full Name
SET domain containing 4provided by MGI
Primary source
MGI:MGI:2136890
See related
Ensembl:ENSMUSG00000022948 AllianceGenome:MGI:2136890
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
ORF21; C21orf18
Summary
Enables histone methyltransferase activity (H3-K4 specific). Involved in several processes, including histone H3-K4 methylation; positive regulation of cytokine production; and regulation of cell proliferation in bone marrow. Predicted to be located in cytosol and nucleus. Is expressed in several structures, including alimentary system; genitourinary system; heart; nervous system; and sensory organ. Orthologous to human SETD4 (SET domain containing 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E18 (RPKM 1.7), CNS E14 (RPKM 1.5) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Setd4 in Genome Data Viewer
Location:
16; 16 C4
Exon count:
17
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (93380345..93401693, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 16 NC_000082.6 (93583457..93604791, complement)

Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 1700029J03 gene Neighboring gene predicted gene, 30695 Neighboring gene carbonyl reductase 1 Neighboring gene carbonyl reductase 1 pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. SETD4 in the Proliferation, Migration, Angiogenesis, Myogenic Differentiation and Genomic Methylation of Bone Marrow Mesenchymal Stem Cells. Liao X, et al. Stem Cell Rev Rep, 2021 Aug. PMID 33506343
  2. The novel methyltransferase SETD4 regulates TLR agonist-induced expression of cytokines through methylation of lysine 4 at histone 3 in macrophages. Zhong Y, et al. Mol Immunol, 2019 Oct. PMID 31376731
  3. SETD4-mediated KU70 methylation suppresses apoptosis. Wang Y, et al. Cell Rep, 2022 May 10. PMID 35545041, Free PMC Article
  4. SETD4-expressing cells contribute to pancreatic development and response to cerulein induced pancreatitis injury. Tian JZ, et al. Sci Rep, 2021 Jun 15. PMID 34131249, Free PMC Article
  5. Deletion of Mouse Setd4 Promotes the Recovery of Hematopoietic Failure. Feng X, et al. Int J Radiat Oncol Biol Phys, 2020 Jul 15. PMID 32259569, Free PMC Article

See all (30) citations in PubMed

See citations in PubMed for homologs of this gene provided by HomoloGene

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SETD4-mediated KU70 methylation suppresses apoptosis.
    Title: SETD4-mediated KU70 methylation suppresses apoptosis.
  2. SETD4 in the Proliferation, Migration, Angiogenesis, Myogenic Differentiation and Genomic Methylation of Bone Marrow Mesenchymal Stem Cells.
    Title: SETD4 in the Proliferation, Migration, Angiogenesis, Myogenic Differentiation and Genomic Methylation of Bone Marrow Mesenchymal Stem Cells.
  3. Setd4 controlled quiescent c-Kit(+) cells contribute to cardiac neovascularization of capillaries beyond activation.
    Title: Setd4 controlled quiescent c-Kit(+) cells contribute to cardiac neovascularization of capillaries beyond activation.
  4. SETD4-expressing cells contribute to pancreatic development and response to cerulein induced pancreatitis injury.
    Title: SETD4-expressing cells contribute to pancreatic development and response to cerulein induced pancreatitis injury.
  5. Loss of Setd4 delays radiation-induced thymic lymphoma in mice.
    Title: Loss of Setd4 delays radiation-induced thymic lymphoma in mice.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables histone H3K36 methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
enables histone H3K4 methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
enables histone H3K4 methyltransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables histone H3K4 monomethyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone H4K20 methyltransferase activity ISO
Inferred from Sequence Orthology
more info
  
enables methyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables protein-lysine N-methyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables transcription coactivator activity IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in histone H3-K4 dimethylation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in histone H3-K4 monomethylation IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within inflammatory response IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within methylation IEA
Inferred from Electronic Annotation
more info
  
involved_in peptidyl-lysine dimethylation IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
involved_in peptidyl-lysine monomethylation IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
involved_in peptidyl-lysine trimethylation IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
involved_in positive regulation of inflammatory response IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of interleukin-6 production IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
involved_in positive regulation of tumor necrosis factor production IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of cell proliferation in bone marrow IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
SET domain-containing protein 4
NP_663457.2
XP_006523078.1
XP_006523079.1
XP_006523080.1
XP_006523081.1
XP_011244423.1
XP_017172462.1
XP_017172466.1
XP_030104955.1
XP_030104956.1
XP_030104957.1
XP_030104958.1
XP_036015800.1
XP_036015801.1
XP_036015802.1
XP_036015803.1

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_001417121.1 → NP_001404050.1  SET domain-containing protein 4 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC160993

  2. NM_001417122.1 → NP_001404051.1  SET domain-containing protein 4 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC160993

  3. NM_001417123.1 → NP_001404052.1  SET domain-containing protein 4 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC160993

  4. NM_001417124.1 → NP_001404053.1  SET domain-containing protein 4 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC160993

  5. NM_001417125.1 → NP_001404054.1  SET domain-containing protein 4 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC160993

  6. NM_001417126.1 → NP_001404055.1  SET domain-containing protein 4 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC160993

  7. NM_001417127.1 → NP_001404056.1  SET domain-containing protein 4 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC160993

  8. NM_001417128.1 → NP_001404057.1  SET domain-containing protein 4 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC160993

  9. NM_001417129.1 → NP_001404058.1  SET domain-containing protein 4 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC160993

  10. NM_001417130.1 → NP_001404059.1  SET domain-containing protein 4 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC160993

  11. NM_001417131.1 → NP_001404060.1  SET domain-containing protein 4 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC160993

  12. NM_145482.4 → NP_663457.2  SET domain-containing protein 4 isoform 1

    See identical proteins and their annotated locations for NP_663457.2

    Status: VALIDATED

    Source sequence(s)
    AC160993
    Consensus CDS
    CCDS28340.1
    UniProtKB/Swiss-Prot
    G3X9W6, P58467
    UniProtKB/TrEMBL
    G3X9W6
    Related
    ENSMUSP00000156723.2, ENSMUST00000233931.2
    Conserved Domains (2) summary
    pfam09273
    Location:313 → 424
    Rubis-subs-bind; Rubisco LSMT substrate-binding
    cd19177
    Location:49 → 286
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins

RNA

  1. NR_184423.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC160993

  2. NR_184424.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC160993

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000082.7 Reference GRCm39 C57BL/6J

    Range
    93380345..93401693 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006523018.5 → XP_006523081.1  SET domain-containing protein 4 isoform X1

    UniProtKB/Swiss-Prot
    G3X9W6
    UniProtKB/TrEMBL
    G3X9W6
    Conserved Domains (2) summary
    pfam09273
    Location:313 → 424
    Rubis-subs-bind; Rubisco LSMT substrate-binding
    cd19177
    Location:49 → 286
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins

  2. XM_036159907.1 → XP_036015800.1  SET domain-containing protein 4 isoform X2

    Conserved Domains (2) summary
    cd19177
    Location:49 → 286
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins
    pfam09273
    Location:313 → 395
    Rubis-subs-bind; Rubisco LSMT substrate-binding

  3. XM_030249098.2 → XP_030104958.1  SET domain-containing protein 4 isoform X4

    Conserved Domains (2) summary
    cd19177
    Location:1 → 225
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins
    pfam09273
    Location:252 → 363
    Rubis-subs-bind; Rubisco LSMT substrate-binding

  4. XM_006523017.5 → XP_006523080.1  SET domain-containing protein 4 isoform X1

    UniProtKB/Swiss-Prot
    G3X9W6
    UniProtKB/TrEMBL
    G3X9W6
    Conserved Domains (2) summary
    pfam09273
    Location:313 → 424
    Rubis-subs-bind; Rubisco LSMT substrate-binding
    cd19177
    Location:49 → 286
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins

  5. XM_006523015.5 → XP_006523078.1  SET domain-containing protein 4 isoform X1

    UniProtKB/Swiss-Prot
    G3X9W6
    UniProtKB/TrEMBL
    G3X9W6
    Conserved Domains (2) summary
    pfam09273
    Location:313 → 424
    Rubis-subs-bind; Rubisco LSMT substrate-binding
    cd19177
    Location:49 → 286
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins

  6. XM_017316973.3 → XP_017172462.1  SET domain-containing protein 4 isoform X2

    Conserved Domains (2) summary
    cd19177
    Location:49 → 286
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins
    pfam09273
    Location:313 → 395
    Rubis-subs-bind; Rubisco LSMT substrate-binding

  7. XM_030249096.2 → XP_030104956.1  SET domain-containing protein 4 isoform X4

    Conserved Domains (2) summary
    cd19177
    Location:1 → 225
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins
    pfam09273
    Location:252 → 363
    Rubis-subs-bind; Rubisco LSMT substrate-binding

  8. XM_006523016.5 → XP_006523079.1  SET domain-containing protein 4 isoform X1

    UniProtKB/Swiss-Prot
    G3X9W6
    UniProtKB/TrEMBL
    G3X9W6
    Conserved Domains (2) summary
    pfam09273
    Location:313 → 424
    Rubis-subs-bind; Rubisco LSMT substrate-binding
    cd19177
    Location:49 → 286
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins

  9. XM_036159908.1 → XP_036015801.1  SET domain-containing protein 4 isoform X4

    Conserved Domains (2) summary
    cd19177
    Location:1 → 225
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins
    pfam09273
    Location:252 → 363
    Rubis-subs-bind; Rubisco LSMT substrate-binding

  10. XM_030249095.2 → XP_030104955.1  SET domain-containing protein 4 isoform X3

    Conserved Domains (2) summary
    pfam09273
    Location:262 → 373
    Rubis-subs-bind; Rubisco LSMT substrate-binding
    cd19177
    Location:3 → 235
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins

  11. XM_030249097.2 → XP_030104957.1  SET domain-containing protein 4 isoform X4

    Conserved Domains (2) summary
    cd19177
    Location:1 → 225
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins
    pfam09273
    Location:252 → 363
    Rubis-subs-bind; Rubisco LSMT substrate-binding

  12. XM_036159909.1 → XP_036015802.1  SET domain-containing protein 4 isoform X4

    Conserved Domains (2) summary
    cd19177
    Location:1 → 225
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins
    pfam09273
    Location:252 → 363
    Rubis-subs-bind; Rubisco LSMT substrate-binding

  13. XM_011246121.4 → XP_011244423.1  SET domain-containing protein 4 isoform X3

    See identical proteins and their annotated locations for XP_011244423.1

    Related
    ENSMUSP00000156698.2, ENSMUST00000232870.2
    Conserved Domains (2) summary
    pfam09273
    Location:262 → 373
    Rubis-subs-bind; Rubisco LSMT substrate-binding
    cd19177
    Location:3 → 235
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins

  14. XM_036159910.1 → XP_036015803.1  SET domain-containing protein 4 isoform X5

    Conserved Domains (1) summary
    cd19177
    Location:49 → 286
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins

  15. XM_017316977.3 → XP_017172466.1  SET domain-containing protein 4 isoform X6

    Related
    ENSMUSP00000156553.2, ENSMUST00000154355.3
    Conserved Domains (1) summary
    cd19177
    Location:49 → 241
    SET_SETD4; SET domain found in SET domain-containing protein 4 (SETD4) and similar proteins

RNA

  1. XR_004939189.1 RNA Sequence

  2. XR_001781817.3 RNA Sequence

  3. XR_001781819.3 RNA Sequence

  4. XR_003951789.2 RNA Sequence

  5. XR_003951787.2 RNA Sequence

  6. XR_001781818.3 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P58467.2 GenPept UniProtKB/Swiss-Prot:P58467

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