dnmt3bb.2 DNA (cytosine-5-)-methyltransferase 3 beta, duplicate b.2 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: dnmt3bb.2provided by ZNC
Official Full Name: DNA (cytosine-5-)-methyltransferase 3 beta, duplicate b.2provided by ZNC
Primary source: ZFIN:ZDB-GENE-990712-11
See related: Ensembl:ENSDARG00000057830 AllianceGenome:ZFIN:ZDB-GENE-990712-11
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: Zmt3; dnmt3; wu:fa11d06; wu:fb73b09
Summary: Predicted to enable DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates and DNA binding activity. Acts upstream of or within several processes, including exocrine pancreas development; eye morphogenesis; and pharyngeal system development. Predicted to be active in nucleus. Is expressed in several structures, including brain; digestive system; eye; musculature system; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in several diseases, including autoimmune disease (multiple); carcinoma (multiple); facioscapulohumeral muscular dystrophy 4; immunodeficiency-centromeric instability-facial anomalies syndrome 1; and thymoma. Orthologous to human DNMT3B (DNA methyltransferase 3 beta) and DNMT3L (DNA methyltransferase 3 like). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 23

Exon count:: 24

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	23	NC_007134.7 (16983361..17004783, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	23	NC_007134.6 (17056981..17078778, complement)

Chromosome 23 - NC_007134.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Data show cooperation between Dnmt3 and an H3K9 methyltransferase G9a in regulating lef1.
Title: Dnmt3 and G9a cooperate for tissue-specific development in zebrafish.
The dynamic expression levels of dnmt3-1 and dnmt3-2 genes/variants suggest that they may well play a role in early development
Title: Novel splice variants associated with one of the zebrafish dnmt3 genes.

Submit: New GeneRIF Correction

General gene information

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Markers

fb73b09 (e-PCR)
- UniSTS:187432

fa11d06.s1 (e-PCR)
- UniSTS:202302

AA494966 (e-PCR)
- UniSTS:206965

AA494822 (e-PCR)
- UniSTS:205436

fb73b09.x1 (e-PCR)
- UniSTS:191143

fe06a06.y1 (e-PCR)
- UniSTS:196008

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA (cytosine-5-)-methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates	IBA Inferred from Biological aspect of Ancestor more info
enables DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-methyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables transferase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within determination of heart left/right asymmetry	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within epigenetic regulation of gene expression	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within exocrine pancreas development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within eye photoreceptor cell development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within methylation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within neurogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within neurogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pharyngeal system development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retina layer formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retina morphogenesis in camera-type eye	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: DNA (cytosine-5-)-methyltransferase 3 beta, duplicate b.2

Names: DNA methyltransferase; de novo DNA methyltransferase 3; dnmt3-1; dnmt3b3; etID41458.23

NP_571461.1

EC 2.1.1.37

XP_068072770.1

EC 2.1.1.37

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)

NM_131386.1 → NP_571461.1 DNA (cytosine-5-)-methyltransferase 3 beta, duplicate b.2

See identical proteins and their annotated locations for NP_571461.1

Status: PROVISIONAL

Source sequence(s)

AB196914

UniProtKB/TrEMBL

Q588C7

Related

ENSDARP00000110904.2, ENSDART00000126841.3

Conserved Domains (4) summary

cd05835
Location:790 → 873

Dnmt3b_related; The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in ...

COG0270
Location:1163 → 1325

Dcm; Site-specific DNA-cytosine methylase [Replication, recombination and repair]

pfam00307
Location:16 → 81

CH; Calponin homology (CH) domain

cl22851
Location:1020 → 1139

PHD_SF; PHD finger superfamily