Dnmt3l DNA methyltransferase 3 like [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Dnmt3lprovided by RGD
Official Full Name: DNA methyltransferase 3 likeprovided by RGD
Primary source: RGD:1303239
See related: EnsemblRapid:ENSRNOG00000001212 AllianceGenome:RGD:1303239
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 several functions, including DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates; enzyme activator activity; and enzyme binding activity. Involved in response to ethanol. Predicted to be located in condensed nuclear chromosome; cytoplasm; and heterochromatin. Predicted to be part of ESC/E(Z) complex. Predicted to be active in nucleus. Biomarker of choline deficiency disease. Orthologous to human DNMT3L (DNA methyltransferase 3 like). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 8.4), Testes (RPKM 6.0) and 4 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 20p12

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (10614591..10628989, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (10614933..10629337, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (11344513..11359090, complement)

Chromosome 20 - NC_086038.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

in the F1 and F2 vinclozolin generation (E16) embryonic testis, but the majority returned to control-generation levels by the F3 generation. The most dramatic effects were on the germ-line-associated Dnmt3A and Dnmt3L
Title: Transgenerational epigenetic programming of the embryonic testis transcriptome.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
NOT enables DNA (cytosine-5-)-methyltransferase activity	ISO Inferred from Sequence Orthology 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 enzyme activator activity	IBA Inferred from Biological aspect of Ancestor more info
enables enzyme activator activity	IEA Inferred from Electronic Annotation more info
enables enzyme activator activity	ISO Inferred from Sequence Orthology more info
enables enzyme binding	IEA Inferred from Electronic Annotation more info
enables enzyme binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in DNA methylation-dependent heterochromatin formation	ISO Inferred from Sequence Orthology more info
involved_in DNA methylation-dependent heterochromatin formation	ISS Inferred from Sequence or Structural Similarity more info
involved_in autosome genomic imprinting	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within autosome genomic imprinting	ISO Inferred from Sequence Orthology more info
involved_in chorionic trophoblast cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within chorionic trophoblast cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in epigenetic programing of female pronucleus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within epigenetic programing of female pronucleus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within genomic imprinting	ISO Inferred from Sequence Orthology more info
involved_in genomic imprinting	ISO Inferred from Sequence Orthology more info
involved_in genomic imprinting	ISS Inferred from Sequence or Structural Similarity more info
involved_in male meiosis I	IEA Inferred from Electronic Annotation more info
involved_in male meiosis I	ISO Inferred from Sequence Orthology more info
involved_in male meiosis I	ISS Inferred from Sequence or Structural Similarity more info
involved_in methylation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within methylation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA methylation-dependent heterochromatin formation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of DNA methylation-dependent heterochromatin formation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA methylation-dependent heterochromatin formation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of gene expression, epigenetic	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in placenta development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within placenta development	ISO Inferred from Sequence Orthology more info
involved_in response to ethanol	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within retrotransposon silencing by heterochromatin formation	ISO Inferred from Sequence Orthology more info
involved_in retrotransposon silencing by heterochromatin formation	ISO Inferred from Sequence Orthology more info
involved_in retrotransposon silencing by heterochromatin formation	ISS Inferred from Sequence or Structural Similarity more info
involved_in retrotransposon silencing by piRNA-directed DNA methylation	IEA Inferred from Electronic Annotation more info
involved_in spermatogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within spermatogenesis	ISO Inferred from Sequence Orthology more info
involved_in spermatogenesis	ISO Inferred from Sequence Orthology more info
involved_in spermatogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in stem cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in stem cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in stem cell differentiation	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of ESC/E(Z) complex	IEA Inferred from Electronic Annotation more info
part_of ESC/E(Z) complex	ISO Inferred from Sequence Orthology more info
part_of ESC/E(Z) complex	ISS Inferred from Sequence or Structural Similarity more info
part_of catalytic complex	ISO Inferred from Sequence Orthology more info
located_in condensed nuclear chromosome	IEA Inferred from Electronic Annotation more info
located_in condensed nuclear chromosome	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in heterochromatin	IEA Inferred from Electronic Annotation more info
located_in heterochromatin	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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

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

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_001003964.2 → NP_001003964.2 DNA (cytosine-5)-methyltransferase 3-like

Status: VALIDATED

Source sequence(s)

JAXUCZ010000020

UniProtKB/Swiss-Prot

Q1LZ50

UniProtKB/TrEMBL

A0A8I6AHQ5, A6JK46

Related

ENSRNOP00000080143.1, ENSRNOT00000110206.2

Conserved Domains (1) summary

cl28890
Location:82 → 204

FYVE_like_SF; FYVE domain like superfamily