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Setdb2 SET domain, bifurcated 2 [ Mus musculus (house mouse) ]

Gene ID: 239122, updated on 8-May-2016
Official Symbol
Setdb2provided by MGI
Official Full Name
SET domain, bifurcated 2provided by MGI
Primary source
MGI:MGI:2685139
See related
Ensembl:ENSMUSG00000071350 Vega:OTTMUSG00000033346
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Clld8; Gm293; KMT1F
Orthologs
Location:
14; 14 C3
Exon count:
15
Annotation release Status Assembly Chr Location
105 current GRCm38.p3 (GCF_000001635.23) 14 NC_000080.6 (59402011..59440877, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 14 NC_000080.5 (60020848..60059714, complement)

Chromosome 14 - NC_000080.6Genomic Context describing neighboring genes Neighboring gene PHD finger protein 11B Neighboring gene PHD finger protein 11D Neighboring gene PHD finger protein 11C Neighboring gene calcium binding protein 39-like Neighboring gene predicted gene, 41163 Neighboring gene cytidine and dCMP deaminase domain containing 1 Neighboring gene aldo-keto reductase family 1, member B8 pseudogene

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Markers

Readthrough Setdb2-phf11c

Readthrough gene: Setdb2-phf11c, Included gene: Phf11d, Included gene: Phf11c

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
histone methyltransferase activity (H3-K9 specific) ISO
Inferred from Sequence Orthology
more info
 
histone-lysine N-methyltransferase activity IEA
Inferred from Electronic Annotation
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
methyltransferase activity IEA
Inferred from Electronic Annotation
more info
 
transferase activity IEA
Inferred from Electronic Annotation
more info
 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
cell cycle IEA
Inferred from Electronic Annotation
more info
 
cell division IEA
Inferred from Electronic Annotation
more info
 
chromatin modification IEA
Inferred from Electronic Annotation
more info
 
chromosome segregation ISO
Inferred from Sequence Orthology
more info
 
histone H3-K9 methylation ISO
Inferred from Sequence Orthology
more info
 
histone lysine methylation IEA
Inferred from Electronic Annotation
more info
 
methylation IEA
Inferred from Electronic Annotation
more info
 
mitotic nuclear division ISO
Inferred from Sequence Orthology
more info
 
multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
chromosome IEA
Inferred from Electronic Annotation
more info
 
nucleus ISO
Inferred from Sequence Orthology
more info
 
Preferred Names
histone-lysine N-methyltransferase SETDB2
NP_001074493.1

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_001320720.1NP_001307649.1  histone-lysine N-methyltransferase SETDB2 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC114007, AI428348, BC172021
    UniProtKB/TrEMBL
    B2RXP3
    Conserved Domains (3) summary
    smart00317
    Location:612674
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    cd01395
    Location:152212
    HMT_MBD; Methyl-CpG binding domains (MBD) present in putative histone methyltransferases (HMT) such as CLLD8 and SETDB1 proteins; CLLD8 contains a MBD, a PreSET and a bifurcated SET domain, suggesting that CLLD8 might be associated with methylation-mediated ...
    pfam05033
    Location:233346
    Pre-SET; Pre-SET motif
  2. NM_001320721.1NP_001307650.1  histone-lysine N-methyltransferase SETDB2 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AC114007, AI428348, BC172021
    UniProtKB/TrEMBL
    B2RXP3
    Conserved Domains (3) summary
    smart00317
    Location:590652
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    cd01395
    Location:130190
    HMT_MBD; Methyl-CpG binding domains (MBD) present in putative histone methyltransferases (HMT) such as CLLD8 and SETDB1 proteins; CLLD8 contains a MBD, a PreSET and a bifurcated SET domain, suggesting that CLLD8 might be associated with methylation-mediated ...
    pfam05033
    Location:211324
    Pre-SET; Pre-SET motif

RNA

  1. NR_135463.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate internal splice site compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC114007, AI428348, BC172021

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 105 details...

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

Reference GRCm38.p3 C57BL/6J

Genomic

  1. NC_000080.6 Reference GRCm38.p3 C57BL/6J

    Range
    59402011..59440877 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Mm_Celera

Genomic

  1. AC_000036.1 Alternate Mm_Celera

    Range
    57202641..57241178 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001081024.1: Suppressed sequence

    Description
    NM_001081024.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.