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Tcfl5 transcription factor like 5 [ Rattus norvegicus (Norway rat) ]

Gene ID: 311715, updated on 4-Jan-2025

Summary

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Official Symbol
Tcfl5provided by RGD
Official Full Name
transcription factor like 5provided by RGD
Primary source
RGD:1305899
See related
EnsemblRapid:ENSRNOG00000061199 AllianceGenome:RGD:1305899
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
RGD1305899
Summary
Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including negative regulation of transcription by RNA polymerase II; regulation of cell population proliferation; and spermatogenesis. Predicted to be located in male germ cell nucleus. Predicted to be active in nucleus. Orthologous to human TCFL5 (transcription factor like 5). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Restricted expression toward (RPKM 354.7) See more
Orthologs
human mouse all
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Genomic context

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See Tcfl5 in Genome Data Viewer
Location:
3q43
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (188112037..188131883, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (167734471..167754174, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (176124846..176144531, complement)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene opioid growth factor receptor Neighboring gene collagen type IX alpha 3 chain Neighboring gene ATP synthase membrane subunit f, pseudogene 2 Neighboring gene death inducer-obliterator 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Basic helix-loop-helix transcription factor Tcfl5 interacts with the Calmegin gene promoter in mouse spermatogenesis. Siep M, et al. Nucleic Acids Res, 2004. PMID 15585666, Free PMC Article
  2. Cloning of TCFL5 encoding a novel human basic helix-loop-helix motif protein that is specifically expressed in primary spermatocytes at the pachytene stage. Maruyama O, et al. Cytogenet Cell Genet, 1998. PMID 9763657
  3. Cha, a basic helix-loop-helix transcription factor involved in the regulation of upstream stimulatory factor activity. Rodríguez CI, et al. J Biol Chem, 2003 Oct 31. PMID 12923186
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables protein dimerization activity IEA
Inferred from Electronic Annotation
more info
  
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in cell differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of cell population proliferation ISO
Inferred from Sequence Orthology
more info
  
involved_in spermatogenesis ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in male germ cell nucleus ISO
Inferred from Sequence Orthology
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
  

General protein information

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Preferred Names
transcription factor-like 5 protein
Names
transcription factor-like 5 (basic helix-loop-helix)

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)

  1. NM_001427152.1 → NP_001414081.1  transcription factor-like 5 protein

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000003
    UniProtKB/TrEMBL
    A0A0G2JYQ8, A6KM87
    Related
    ENSRNOP00000070754.2, ENSRNOT00000082266.3

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

  1. NC_086021.1 Reference GRCr8

    Range
    188112037..188131883 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039106761.2 → XP_038962689.1  transcription factor-like 5 protein isoform X1

    UniProtKB/TrEMBL
    A6KM87
    Related
    ENSRNOP00000106541.1, ENSRNOT00000154495.1
    Conserved Domains (1) summary
    cd18909
    Location:389 → 448
    bHLH_TCFL5; basic helix-loop-helix (bHLH) domain found in transcription factor-like 5 protein (TCFL5) and similar proteins
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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