Tfam transcription factor A, mitochondrial [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tfamprovided by RGD
Official Full Name: transcription factor A, mitochondrialprovided by RGD
Primary source: RGD:620682
See related: EnsemblRapid:ENSRNOG00000000613 AllianceGenome:RGD:620682
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
Also known as: Mttfa
Summary: Enables heat shock protein binding activity and transcription coactivator binding activity. Predicted to be involved in positive regulation of transcription, DNA-templated and transcription initiation from mitochondrial promoter. Predicted to act upstream of or within mitochondrial respiratory chain complex assembly. Located in mitochondrion. Biomarker of status epilepticus. Human ortholog(s) of this gene implicated in Alzheimer's disease; Huntington's disease; Parkinson's disease; amyotrophic lateral sclerosis; and mitochondrial DNA depletion syndrome 15. Orthologous to human TFAM (transcription factor A, mitochondrial). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Muscle (RPKM 321.1), Heart (RPKM 229.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 20p11

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (17355373..17367422)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (17356243..17368293)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (18594057..18606106)

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?

NRF1-enhanced miR-4458 alleviates cardiac hypertrophy through releasing TTP-inhibited TFAM.
Title: NRF1-enhanced miR-4458 alleviates cardiac hypertrophy through releasing TTP-inhibited TFAM.
Reduced O2 consumption was observed with Tfam knockdown.
Title: Maternal fructose-induced oxidative stress occurs viaTfam and Ucp5 epigenetic regulation in offspring hippocampi.
tudying relations to mt nucleoids sizes, we employed 3D superresolution fluorescent photoactivable localization microscopy (FPALM) with lentivirally transduced Eos conjugate of mt single-stranded-DNA-binding protein (mtSSB) or transcription factor TFAM; or by 3D immunocytochemistry. mtSSB (binding transcription or replication nucleoids) contoured "nucleoids" which were smaller by 25% (less diameters >150 nm) in GK beta...
Title: Nkx6.1 decline accompanies mitochondrial DNA reduction but subtle nucleoid size decrease in pancreatic islet β-cells of diabetic Goto Kakizaki rats.
We also assessed mitochondrial DNA (mtDNA) content, citrate synthase activity, oxidative lesions to protein and mtDNA (i.e., carbonyls and the abundance of mtDNA(4834) deletion), and the mitochondrial transcription factor A (TFAM) binding to specific mtDNA regions.
Title: Administration of Enalapril Started Late in Life Attenuates Hypertrophy and Oxidative Stress Burden, Increases Mitochondrial Mass, and Modulates Mitochondrial Quality Control Signaling in the Rat Heart.
Ogg1 overexpression also reduced binding of mitochondrial transcription factor A (TFAM) to both regulatory and coding regions of the mitochondrial genome without altering total abundance of TFAM in either control or hypoxic cells. These observations suggest that oxidative DNA modifications in the D-loop region during hypoxia are important for increased TFAM binding and ensuing replication of the mitochondrial genome.
Title: Regulation of mitochondrial genome replication by hypoxia: The role of DNA oxidation in D-loop region.
these results indicate that defect mitochondrial biogenesis in RVLM neurons entailing redox-sensitive and IL-1beta-dependent suppression of TFAM because of the increase in the formation of Keap1/Nrf2 complex, reductions in nuclear translocation of the activated Nrf2 and its binding to the Tfam gene promoter may underlie hypertension developed under the LPS-induced systemic inflammation
Title: Impaired Nrf2 regulation of mitochondrial biogenesis in rostral ventrolateral medulla on hypertension induced by systemic inflammation.
Following skeletal muscle denervation, import of Tfam into the mitochondrion is the critical point of regulation for this protein.
Title: Effect of denervation on the regulation of mitochondrial transcription factor A expression in skeletal muscle.
The modulation of TFAM expression, TFAM-binding to mtDNA and mtDNA content with aging and CR showed a trend shared by the skeletal muscle and liver, but not by the frontal cortex counterpart.
Title: A comparison among the tissue-specific effects of aging and calorie restriction on TFAM amount and TFAM-binding activity to mtDNA in rat.
An age-related decrease in mitochondrial DNA (mtDNA) content and mitochondrial transcription factor A (TFAM) amount, fully prevented by calorie restriction.
Title: Aging and calorie restriction oppositely affect mitochondrial biogenesis through TFAM binding at both origins of mitochondrial DNA replication in rat liver.
subnormal membrane transport to systems in diabetes impair the transfer of TFAM into the mitochondria, and decreased TFAM-mtDNA binding that results in subnormal mitochondria transcription.
Title: Impaired transport of mitochondrial transcription factor A (TFAM) and the metabolic memory phenomenon associated with the progression of diabetic retinopathy.

Submit: New GeneRIF Correction See all GeneRIFs (23)

General gene information

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Markers

Tfam (e-PCR), detects polymorphism
- UniSTS:496730

RH130441 (e-PCR)
- UniSTS:213725

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISS Inferred from Sequence or Structural Similarity more info
enables heat shock protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables mitochondrial promoter sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables mitochondrial promoter sequence-specific DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables mitochondrial transcription factor activity	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	IBA Inferred from Biological aspect of Ancestor more info
enables transcription coactivator binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within mitochondrial respiratory chain complex assembly	ISO Inferred from Sequence Orthology more info
involved_in mitochondrial transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to hypoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nutrient	IEP Inferred from Expression Pattern more info	PubMed
involved_in transcription initiation at mitochondrial promoter	IBA Inferred from Biological aspect of Ancestor more info
involved_in transcription initiation at mitochondrial promoter	ISO Inferred from Sequence Orthology more info
involved_in transcription initiation at mitochondrial promoter	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cytosol	TAS Traceable Author Statement more info
located_in mitochondrial matrix	ISO Inferred from Sequence Orthology more info
located_in mitochondrial matrix	TAS Traceable Author Statement more info
located_in mitochondrial nucleoid	ISO Inferred from Sequence Orthology more info
located_in mitochondrial nucleoid	ISS Inferred from Sequence or Structural Similarity more info
is_active_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: transcription factor A, mitochondrial

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_031326.2 → NP_112616.2 transcription factor A, mitochondrial precursor

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000020

UniProtKB/Swiss-Prot

Q91ZW1, Q9WTM7

UniProtKB/TrEMBL

A6JKP1, Q9ES32

Related

ENSRNOP00000000753.2, ENSRNOT00000000753.6

Conserved Domains (2) summary

COG5648
Location:46 → 215

NHP6B; Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]

pfam00505
Location:49 → 116

HMG_box; HMG (high mobility group) box