Smyd2 SET and MYND domain containing 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Smyd2provided by RGD
Official Full Name: SET and MYND domain containing 2provided by RGD
Primary source: RGD:727785
See related: Ensembl:ENSRNOG00000003583 AllianceGenome:RGD:727785
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
Also known as: HSKM-B
Summary: Predicted to enable RNA polymerase II complex binding activity; histone methyltransferase activity (H3-K36 specific); and p53 binding activity. Involved in heart development. Located in cytosol and nucleus. Orthologous to human SMYD2 (SET and MYND domain containing 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Muscle (RPKM 828.0), Heart (RPKM 470.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 13q26

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (103956470..103997774, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (101425270..101466576, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (108642156..108686293)

Chromosome 13 - NC_086031.1 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?

LncRNA NEAT1 promotes cardiac hypertrophy through microRNA-19a-3p/SMYD2 axis.
Title: LncRNA NEAT1 promotes cardiac hypertrophy through microRNA-19a-3p/SMYD2 axis.
SMYD2 glutathionylation is a novel molecular mechanism by which reactive oxygen species contribute to sarcomere destabilization.
Title: SMYD2 glutathionylation contributes to degradation of sarcomeric proteins.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA polymerase II complex binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II complex binding	ISS Inferred from Sequence or Structural Similarity more info
enables histone H3K36 methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone H3K36 methyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info
enables histone H3K4 trimethyltransferase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables p53 binding	ISO Inferred from Sequence Orthology more info
enables protein-lysine N-methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables protein-lysine N-methyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within chromatin remodeling	ISO Inferred from Sequence Orthology more info
involved_in heart development	IEP Inferred from Expression Pattern more info	PubMed
involved_in negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell population proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of DNA damage response, signal transduction by p53 class mediator	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA damage response, signal transduction by p53 class mediator	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISS Inferred from Sequence or Structural Similarity more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: N-lysine methyltransferase SMYD2

Names: SET and MYND domain-containing protein 2; histone methyltransferase SMYD2

NP_996733.1

EC 2.1.1.354

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_206851.1 → NP_996733.1 N-lysine methyltransferase SMYD2

See identical proteins and their annotated locations for NP_996733.1

Status: VALIDATED

Source sequence(s)

AW433707, BK001057, CB726546

UniProtKB/Swiss-Prot

Q7M6Z3

Related

ENSRNOP00000004783.4, ENSRNOT00000004783.7

Conserved Domains (3) summary

pfam13424
Location:381 → 426

TPR_12; Tetratricopeptide repeat

cd19202
Location:7 → 269

SET_SMYD2; SET domain (including post-SET domain) found in SET and MYND domain-containing protein 2 (SMYD2) and similar proteins

pfam01753
Location:52 → 90

zf-MYND; MYND finger