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Dnmt3l DNA (cytosine-5-)-methyltransferase 3-like [ Mus musculus (house mouse) ]

Gene ID: 54427, updated on 13-Dec-2022

Summary

Official Symbol
Dnmt3lprovided by MGI
Official Full Name
DNA (cytosine-5-)-methyltransferase 3-likeprovided by MGI
Primary source
MGI:MGI:1859287
See related
Ensembl:ENSMUSG00000000730 AllianceGenome:MGI:1859287
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
ecat7; D6Ertd14e
Summary
CpG methylation is an epigenetic modification that is important for embryonic development, imprinting, and X-chromosome inactivation. Studies in mice have demonstrated that DNA methylation is required for mammalian development. This gene encodes a nuclear protein that is a catalytically inactive regulatory factor of DNA methyltransferases. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2015]
Expression
Biased expression in bladder adult (RPKM 7.4), testis adult (RPKM 3.8) and 4 other tissues See more
Orthologs
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Genomic context

See Dnmt3l in Genome Data Viewer
Location:
10 C1; 10 39.72 cM
Exon count:
17
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (77878121..77899456)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (78042287..78063622)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene cilia and flagella associated protein 410 Neighboring gene phosphofructokinase, liver, B-type Neighboring gene autoimmune regulator (autoimmune polyendocrinopathy candidiasis ectodermal dystrophy) Neighboring gene predicted gene, 51775 Neighboring gene icos ligand Neighboring gene predicted gene, 47922

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (8)  1 citation
  • Endonuclease-mediated (3) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC102308

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables enzyme activator activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables enzyme activator activity IDA
Inferred from Direct Assay
more info
PubMed 
enables enzyme activator activity ISO
Inferred from Sequence Orthology
more info
 
enables enzyme binding ISO
Inferred from Sequence Orthology
more info
 
enables enzyme binding ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
enables enzyme regulator activity IEA
Inferred from Electronic Annotation
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in C-5 methylation of cytosine IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in C-5 methylation of cytosine ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within DNA methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in DNA methylation involved in gamete generation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in DNA methylation on cytosine IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within chorionic trophoblast cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within genomic imprinting IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within in utero embryonic development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in male meiosis I IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of DNA methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of DNA-templated transcription ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within negative regulation of transposition IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within placenta development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of DNA methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of gene expression IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within spermatogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in spermatogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in stem cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
part_of ESC/E(Z) complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of catalytic complex ISO
Inferred from Sequence Orthology
more info
 
located_in condensed nuclear chromosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in heterochromatin IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
DNA (cytosine-5)-methyltransferase 3-like

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001081695.2NP_001075164.1  DNA (cytosine-5)-methyltransferase 3-like isoform 1

    See identical proteins and their annotated locations for NP_001075164.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) is expressed in ovary (PMID: 17060371). It differs in the 5' UTR, compared to variant 1. Variants 1, 2 and 3 encode the same isoform (1).
    Source sequence(s)
    AV511576, EF051624
    Consensus CDS
    CCDS23962.1
    UniProtKB/Swiss-Prot
    Q9CWR8
    UniProtKB/TrEMBL
    A3EWM2
    Related
    ENSMUSP00000121562.2, ENSMUST00000138785.8
    Conserved Domains (1) summary
    cl22851
    Location:81203
    PHD_SF; PHD finger superfamily
  2. NM_001284197.1NP_001271126.1  DNA (cytosine-5)-methyltransferase 3-like isoform 1

    See identical proteins and their annotated locations for NP_001271126.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) is expressed in testis, thymus, ovary, and heart, as well as in 7-day, 15-day, and 17-day embryo (PMID: 11306809). It differs in the 5' UTR, compared to variant 1. Variants 1, 2 and 3 encode the same isoform (1).
    Source sequence(s)
    AF220524, AV473569, AV511576
    Consensus CDS
    CCDS23962.1
    UniProtKB/Swiss-Prot
    Q9CWR8
    UniProtKB/TrEMBL
    A3EWM2
    Related
    ENSMUSP00000116970.2, ENSMUST00000151242.8
    Conserved Domains (1) summary
    cl22851
    Location:81203
    PHD_SF; PHD finger superfamily
  3. NM_001284198.1NP_001271127.1  DNA (cytosine-5)-methyltransferase 3-like isoform 2

    See identical proteins and their annotated locations for NP_001271127.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) is expressed in testis (PMID: 17060371). It contains alternate 5' UTR exons, lacks a portion of the 5' coding region, and initiates translation at a downstream AUG start codon, compared to variant 1. The resulting isoform (2) has a shorter N-terminus compared to isoform 1. Variants 4, 5 and 6 encode the same isoform (2).
    Source sequence(s)
    AV511576, EF051621
    Consensus CDS
    CCDS70061.1
    UniProtKB/TrEMBL
    D3YUQ4
    Related
    ENSMUSP00000123015.2, ENSMUST00000123940.2
  4. NM_001284199.1NP_001271128.1  DNA (cytosine-5)-methyltransferase 3-like isoform 2

    See identical proteins and their annotated locations for NP_001271128.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) is expressed in testis (PMID: 17060371). It contains alternate 5' UTR exons, lacks a portion of the 5' coding region, and initiates translation at a downstream AUG start codon, compared to variant 1. The resulting isoform (2) has a shorter N-terminus compared to isoform 1. Variants 4, 5 and 6 encode the same isoform (2).
    Source sequence(s)
    AV511576, EF051622
    Consensus CDS
    CCDS70061.1
    UniProtKB/TrEMBL
    D3YUQ4
    Related
    ENSMUSP00000117827.2, ENSMUST00000139539.8
  5. NM_001284200.1NP_001271129.1  DNA (cytosine-5)-methyltransferase 3-like isoform 2

    See identical proteins and their annotated locations for NP_001271129.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) is expressed in testis (PMID: 17060371). It contains alternate 5' UTR exons, lacks a portion of the 5' coding region, and initiates translation at a downstream AUG start codon, compared to variant 1. The resulting isoform (2) has a shorter N-terminus compared to isoform 1. Variants 4, 5 and 6 encode the same isoform (2).
    Source sequence(s)
    AV511576, EF051623
    Consensus CDS
    CCDS70061.1
    UniProtKB/TrEMBL
    D3YUQ4
    Related
    ENSMUSP00000119571.2, ENSMUST00000131825.8
  6. NM_019448.4NP_062321.1  DNA (cytosine-5)-methyltransferase 3-like isoform 1

    See identical proteins and their annotated locations for NP_062321.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) is expressed in prospermatogonia (PMID: 17060371). It encodes the longer isoform (1). Variants 1, 2 and 3 encode the same isoform.
    Source sequence(s)
    AK010434, AV511576
    Consensus CDS
    CCDS23962.1
    UniProtKB/Swiss-Prot
    Q9CWR8
    UniProtKB/TrEMBL
    A3EWM2
    Related
    ENSMUSP00000000746.6, ENSMUST00000000746.12
    Conserved Domains (1) summary
    cl22851
    Location:81203
    PHD_SF; PHD finger superfamily

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_000076.7 Reference GRCm39 C57BL/6J

    Range
    77878121..77899456
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)