Setd3 SET domain containing 3, actin N3(tau)-histidine methyltransferase [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Setd3provided by RGD
Official Full Name: SET domain containing 3, actin N3(tau)-histidine methyltransferaseprovided by RGD
Primary source: RGD:1309550
See related: EnsemblRapid:ENSRNOG00000006587 AllianceGenome:RGD:1309550
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: RGD1309550
Summary: Enables protein-L-histidine N-tele-methyltransferase activity. Involved in actin modification and peptidyl-histidine methylation. Predicted to be located in chromatin and cytoplasm. Orthologous to human SETD3 (SET domain containing 3, actin N3(tau)-histidine methyltransferase). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Muscle (RPKM 425.8), Brain (RPKM 379.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q32

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (132787478..132854421, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (127023058..127090020, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (132023128..132090072, complement)

Chromosome 6 - NC_086024.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

SETD3 Downregulation Mediates PTEN Upregulation-Induced Ischemic Neuronal Death Through Suppression of Actin Polymerization and Mitochondrial Function.
Title: SETD3 Downregulation Mediates PTEN Upregulation-Induced Ischemic Neuronal Death Through Suppression of Actin Polymerization and Mitochondrial Function.
The functional interplay between SETD3 and FoxM1 on chromatin may negatively regulate VEGF expression under hypoxic pulmonary hypertension (HPH); through the VEGF receptor-extracellular signal-regulated kinase-hypoxia-induced factor-1 signal pathway.
Title: SETD3 negatively regulates VEGF expression during hypoxic pulmonary hypertension in rats.
SETD3 protein is the actin-specific histidine N-methyltransferase.
Title: SETD3 protein is the actin-specific histidine N-methyltransferase.
SETD3 is a H3K4/K36 methyltransferase and plays an important role in the transcriptional regulation of muscle cell differentiation
Title: Histone methyltransferase SETD3 regulates muscle differentiation.

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General gene information

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Markers

RH128412 (e-PCR)
- UniSTS:211720

D12Ertd771e (e-PCR), detects polymorphism
- UniSTS:167100

RH140597 (e-PCR)
- UniSTS:222666

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA polymerase II-specific DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables actin binding	IEA Inferred from Electronic Annotation more info
enables histone H3K36 methyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables histone H3K36 methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone H3K4 methyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables histone H3K4 methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables protein-L-histidine N-tele-methyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein-L-histidine N-tele-methyltransferase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein-L-histidine N-tele-methyltransferase activity	IEA Inferred from Electronic Annotation more info
enables protein-L-histidine N-tele-methyltransferase activity	ISO Inferred from Sequence Orthology more info
NOT enables protein-lysine N-methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables transcription coactivator activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in actin modification	IBA Inferred from Biological aspect of Ancestor more info
involved_in actin modification	IDA Inferred from Direct Assay more info	PubMed
involved_in actin modification	IEA Inferred from Electronic Annotation more info
involved_in actin modification	ISO Inferred from Sequence Orthology more info
involved_in bioluminescence	IEA Inferred from Electronic Annotation more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in peptidyl-histidine methylation	IDA Inferred from Direct Assay more info	PubMed
involved_in peptidyl-histidine methylation	IEA Inferred from Electronic Annotation more info
involved_in peptidyl-histidine methylation	ISO Inferred from Sequence Orthology more info
NOT involved_in peptidyl-lysine trimethylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of muscle cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of uterine smooth muscle contraction	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of uterine smooth muscle contraction	ISO Inferred from Sequence Orthology more info
involved_in regulation of uterine smooth muscle contraction	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in chromatin	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 cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: actin-histidine N-methyltransferase

Names: SET domain containing 3, actin histidine methyltransferase; SET domain-containing protein 3; histone-lysine N-methyltransferase setd3; histone-lysine N-methyltransferase setd3-like; protein-L-histidine N-tele-methyltransferase

NP_001333399.1

EC 2.1.1.85

XP_063117848.1

EC 2.1.1.85

XP_063117849.1

EC 2.1.1.85

XP_063117850.1

EC 2.1.1.85

XP_063117851.1

EC 2.1.1.85

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_001346470.1 → NP_001333399.1 actin-histidine N-methyltransferase

Status: VALIDATED

Source sequence(s)

JAXUCZ010000006

UniProtKB/Swiss-Prot

G3V6U9, Q5FWY6

UniProtKB/TrEMBL

A6KBF2

Related

ENSRNOP00000009121.4, ENSRNOT00000009120.10

Conserved Domains (1) summary

pfam09273
Location:350 → 475

Rubis-subs-bind; Rubisco LSMT substrate-binding

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086024.1 Reference GRCr8

Range

132787478..132854421 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063261779.1 → XP_063117849.1 actin-histidine N-methyltransferase isoform X2

UniProtKB/TrEMBL

A6KBF4
XM_063261781.1 → XP_063117851.1 actin-histidine N-methyltransferase isoform X2

UniProtKB/TrEMBL

A6KBF4
XM_063261780.1 → XP_063117850.1 actin-histidine N-methyltransferase isoform X2

UniProtKB/TrEMBL

A6KBF4
XM_063261778.1 → XP_063117848.1 actin-histidine N-methyltransferase isoform X1

UniProtKB/TrEMBL

D4A7S1

Related

ENSRNOP00000054006.5, ENSRNOT00000057179.6