Smyd5 SMYD family member 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Smyd5provided by RGD
Official Full Name: SMYD family member 5provided by RGD
Primary source: RGD:1309153
See related: EnsemblRapid:ENSRNOG00000015589 AllianceGenome:RGD:1309153
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable histone H4K20 methyltransferase activity. Predicted to be involved in regulation of stem cell differentiation; regulation of stem cell division; and retrotransposon silencing by heterochromatin formation. Orthologous to human SMYD5 (SMYD family member 5). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Adrenal (RPKM 49.1), Heart (RPKM 49.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q34

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (119527115..119541580)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (117969615..117984082)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (117215064..117229873)

Chromosome 4 - NC_086022.1 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
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?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables histone H3K36 trimethyltransferase activity	IEA Inferred from Electronic Annotation more info
enables histone H4K20 methyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables histone H4K20 methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables protein-lysine N-methyltransferase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in methylation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of gene expression, epigenetic	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of gene expression, epigenetic	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cytoplasmic translational elongation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cytoplasmic translational elongation	ISO Inferred from Sequence Orthology more info
involved_in regulation of stem cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in regulation of stem cell division	ISO Inferred from Sequence Orthology more info
involved_in transposable element silencing by heterochromatin formation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in cytoplasm	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: histone-lysine N-trimethyltransferase SMYD5

Names: SET and MYND domain containing 5; SET and MYND domain-containing protein 5

NP_001101340.1

EC 2.1.1.372

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_001107870.1 → NP_001101340.1 histone-lysine N-trimethyltransferase SMYD5

See identical proteins and their annotated locations for NP_001101340.1

Status: PROVISIONAL

Source sequence(s)

CH473957

UniProtKB/TrEMBL

A0A8I6A432, A6IAR7, D3ZII8

Related

ENSRNOP00000020909.5, ENSRNOT00000020909.8

Conserved Domains (2) summary

smart00317
Location:298 → 351

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

pfam15371
Location:68 → 144

DUF4599; Domain of unknown function (DUF4599)