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Tfcp2l1 transcription factor CP2-like 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 304741, updated on 4-Jan-2025

Summary

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Official Symbol
Tfcp2l1provided by RGD
Official Full Name
transcription factor CP2-like 1provided by RGD
Primary source
RGD:1305456
See related
EnsemblRapid:ENSRNOG00000002414 AllianceGenome:RGD:1305456
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
Tcfcp2l1
Summary
Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including determination of adult lifespan; epithelial cell maturation; and negative regulation of transcription by RNA polymerase II. Predicted to be located in cytoplasm and membrane. Predicted to be active in nucleus. Orthologous to human TFCP2L1 (transcription factor CP2 like 1). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Kidney (RPKM 368.0), Adrenal (RPKM 39.4) and 2 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Tfcp2l1 in Genome Data Viewer
Location:
13q11
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (32286643..32346671)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (29733813..29793870)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (34610689..34671617)

Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene cytoplasmic linker associated protein 1 Neighboring gene U4atac minor spliceosomal RNA Neighboring gene uncharacterized LOC134481480 Neighboring gene uncharacterized LOC120096197 Neighboring gene U2 spliceosomal RNA

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. Modulation of CP2 family transcriptional activity by CRTR-1 and sumoylation. To S, et al. PLoS One, 2010 Jul 22. PMID 20661472, Free PMC Article
  2. CRTR-1, a developmentally regulated transcriptional repressor related to the CP2 family of transcription factors. Rodda S, et al. J Biol Chem, 2001 Feb 2. PMID 11073954
  3. Grainyhead-related transcription factor is required for duct maturation in the salivary gland and the kidney of the mouse. Yamaguchi Y, et al. Development, 2006 Dec. PMID 17079272
  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 transcription activator activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
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 RNA polymerase II transcription regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within cell morphogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within cytoplasm organization ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within determination of adult lifespan ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within epithelial cell maturation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of growth ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within salivary gland development ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in membrane 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 CP2-like protein 1

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_001107170.1 → NP_001100640.1  transcription factor CP2-like protein 1

    See identical proteins and their annotated locations for NP_001100640.1

    Status: PROVISIONAL

    Source sequence(s)
    CH474028
    UniProtKB/TrEMBL
    A6K7W1, D3ZHA6
    Related
    ENSRNOP00000003280.5, ENSRNOT00000003280.9
    Conserved Domains (2) summary
    cd09590
    Location:310 → 376
    SAM_LBP9; SAM domain of LBP9 transcriptional factors
    pfam04516
    Location:34 → 237
    CP2; CP2 transcription factor

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_086031.1 Reference GRCr8

    Range
    32286643..32346671
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039090683.1 → XP_038946611.1  transcription factor CP2-like protein 1 isoform X1

    Conserved Domains (1) summary
    cl15755
    Location:126 → 192
    SAM_superfamily; SAM (Sterile alpha motif )
Nucleotide Protein Strain
Heading Accession and Version

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