Tcf21 transcription factor 21 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tcf21provided by RGD
Official Full Name: transcription factor 21provided by RGD
Primary source: RGD:620523
See related: EnsemblRapid:ENSRNOG00000016700 AllianceGenome:RGD:620523
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: Pod1; Msf-1; Capsulin
Summary: Predicted to enable several functions, including DNA-binding transcription factor activity, RNA polymerase II-specific; DNA-binding transcription factor binding activity; and E-box binding activity. Involved in Sertoli cell differentiation; embryonic digestive tract morphogenesis; and gland development. Predicted to be located in nucleoplasm. Predicted to be part of transcription regulator complex. Human ortholog(s) of this gene implicated in coronary artery disease and ventricular septal defect. Orthologous to human TCF21 (transcription factor 21). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Lung (RPKM 332.5), Kidney (RPKM 161.5) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1p12

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (24520499..24523358)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (22701353..22704212)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (23906717..23909576)

Chromosome 1 - NC_086019.1 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?

Transcription factor 21 expression in injured podocytes of glomerular diseases.
Title: Transcription factor 21 expression in injured podocytes of glomerular diseases.
Data suggest that Sry (sex determining region Y) and Tcf21 induce initial stages of embryonic Sertoli cell differentiation; Scx (scleraxis) induces later stages. This cascade--Sry>Tcf21>Scx--appears to promote subsequent sex differentiation.
Title: SRY induced TCF21 genome-wide targets and cascade of bHLH factors during Sertoli cell differentiation and male sex determination in rats.
The current study identifies one of the first direct downstream targets of the male sex determining factor SRY as the basic-helix-loop-helix (bHLH) transcription factor TCF21.
Title: Basic helix-loop-helix transcription factor TCF21 is a downstream target of the male sex determining gene SRY.
role of capsulin in pit/gland formation and epithelial cell differentiation in cultured stomach tissue (capsulin)
Title: The role of capsulin in the morphogenesis and differentiation of fetal rat gastric mucosa.

Submit: New GeneRIF Correction

General gene information

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Markers

Tcf21 (e-PCR), detects polymorphism
- UniSTS:464696

Spp1 (e-PCR), detects polymorphism
- UniSTS:498509

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISS Inferred from Sequence or Structural Similarity 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 DNA-binding transcription repressor activity, RNA polymerase II-specific	ISS Inferred from Sequence or Structural Similarity more info
enables E-box binding	ISO Inferred from Sequence Orthology more info
enables E-box binding	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables bHLH transcription factor binding	ISO Inferred from Sequence Orthology more info
enables histone deacetylase binding	ISO Inferred from Sequence Orthology more info
enables nuclear androgen receptor 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 Sertoli cell differentiation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within animal organ morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within branching involved in ureteric bud morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in branching involved in ureteric bud morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in branchiomeric skeletal muscle development	ISO Inferred from Sequence Orthology more info
involved_in branchiomeric skeletal muscle development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within bronchiole development	ISO Inferred from Sequence Orthology more info
involved_in bronchiole development	ISS Inferred from Sequence or Structural Similarity more info
involved_in developmental process	IBA Inferred from Biological aspect of Ancestor more info
involved_in diaphragm development	ISO Inferred from Sequence Orthology more info
involved_in diaphragm development	ISS Inferred from Sequence or Structural Similarity more info
involved_in embryonic digestive tract morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within epithelial cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in epithelial cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in gland development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within glomerulus development	ISO Inferred from Sequence Orthology more info
involved_in glomerulus development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within kidney development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lung alveolus development	ISO Inferred from Sequence Orthology more info
involved_in lung alveolus development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within lung morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in lung morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within lung vasculature development	ISO Inferred from Sequence Orthology more info
involved_in lung vasculature development	ISS Inferred from Sequence or Structural Similarity more info
involved_in metanephric glomerular capillary formation	ISO Inferred from Sequence Orthology more info
involved_in metanephric glomerular capillary formation	ISS Inferred from Sequence or Structural Similarity more info
involved_in metanephric mesenchymal cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in metanephric mesenchymal cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within morphogenesis of a branching structure	ISO Inferred from Sequence Orthology more info
involved_in morphogenesis of a branching structure	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of androgen receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of androgen receptor signaling pathway	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 positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within reproductive structure development	ISO Inferred from Sequence Orthology more info
involved_in reproductive structure development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within respiratory system development	ISO Inferred from Sequence Orthology more info
involved_in respiratory system development	ISS Inferred from Sequence or Structural Similarity more info
involved_in roof of mouth development	ISO Inferred from Sequence Orthology more info
involved_in roof of mouth development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within sex determination	ISO Inferred from Sequence Orthology more info
involved_in sex determination	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within sex differentiation	ISO Inferred from Sequence Orthology more info
involved_in spleen development	ISO Inferred from Sequence Orthology more info
involved_in spleen development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within ureteric bud development	ISO Inferred from Sequence Orthology more info
involved_in ureteric bud development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within vasculature development	ISO Inferred from Sequence Orthology more info
involved_in vasculature development	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: transcription factor 21

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_001032397.1 → NP_001027569.1 transcription factor 21

See identical proteins and their annotated locations for NP_001027569.1

Status: PROVISIONAL

Source sequence(s)

BC100106

UniProtKB/TrEMBL

A6JUP4, F7F049, Q498R2

Related

ENSRNOP00000022798.4, ENSRNOT00000022798.7

Conserved Domains (1) summary

cd19704
Location:77 → 140

bHLH_TS_TCF21_capsulin; basic helix-loop-helix (bHLH) domain found in transcription factor 21 (TCF-21) and similar proteins