Foxn1 forkhead box N1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Foxn1provided by RGD
Official Full Name: forkhead box N1provided by RGD
Primary source: RGD:3970
See related: EnsemblRapid:ENSRNOG00000010870 AllianceGenome:RGD:3970
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: Rnu; Whn; RONU
Summary: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and transcription cis-regulatory region binding activity. Involved in keratinocyte differentiation and thymus development. Predicted to be located in nucleus. Human ortholog(s) of this gene implicated in T-cell immunodeficiency, congenital alopecia, and nail dystrophy; alopecia; nail disease; and primary immunodeficiency disease. Orthologous to human FOXN1 (forkhead box N1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 18.2) and Testes (RPKM 3.4) See more
Orthologs: human mouse all
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Genomic context

Location:: 10q25

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (63749461..63778468, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (63251400..63273710, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (65621142..65634666, complement)

Chromosome 10 - NC_086028.1 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?

Characterization of homozygous Foxn1 mutations induced in rat embryos by different delivery forms of Cas9 nuclease.
Title: Characterization of homozygous Foxn1 mutations induced in rat embryos by different delivery forms of Cas9 nuclease.
Mechanisms and signaling pathways by which Foxn1 modulates keratinocyte differentiation in hair follicle and nail apparatus. Molecular and functional consequences of loss of function of Foxn1 protein in skin. Review.
Title: Learning from nudity: lessons from the nude phenotype.

Submit: New GeneRIF Correction

General gene information

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Markers

Foxn1 (e-PCR), detects polymorphism
- UniSTS:531516

BB241108 (e-PCR)
- UniSTS:208713

X81593 (e-PCR)
- UniSTS:125866

X81593 (e-PCR)
- UniSTS:163509

D10Rat69 (e-PCR)
- UniSTS:118205

RH127571 (e-PCR)
- UniSTS:210881

D11Seg19 (e-PCR), detects polymorphism
- UniSTS:141792

Foxn1 (e-PCR), detects polymorphism
- UniSTS:143339

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 factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor 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

Process	Evidence Code	Pubs
involved_in T cell homeostasis	ISO Inferred from Sequence Orthology more info
involved_in T cell lineage commitment	ISO Inferred from Sequence Orthology more info
involved_in blood vessel morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within epidermis development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hair follicle development	ISO Inferred from Sequence Orthology more info
involved_in hemopoiesis	ISO Inferred from Sequence Orthology more info
involved_in keratinocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within keratinocyte differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lymphocyte homeostasis	ISO Inferred from Sequence Orthology more info
involved_in lymphoid lineage cell migration into thymus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within nail development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of epithelial cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of hair follicle development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of T cell differentiation in thymus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in regulation of positive thymic T cell selection	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in thymus development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within thymus development	ISO Inferred from Sequence Orthology more info
involved_in thymus epithelium morphogenesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: forkhead box protein N1

Names: winged-helix nude

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_001100648.2 → NP_001094118.2 forkhead box protein N1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

UniProtKB/TrEMBL

A0A8I6GMI6, A6HH46, D4A1T1

Related

ENSRNOP00000097448.1, ENSRNOT00000116741.2

Conserved Domains (1) summary

cd20056
Location:270 → 366

FH_FOXN1; Forkhead (FH) domain found in Forkhead box protein N1 (FOXN1)

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_086028.1 Reference GRCr8

Range

63749461..63778468 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063268670.1 → XP_063124740.1 forkhead box protein N1 isoform X3

UniProtKB/TrEMBL

D4A1T1
XM_063268668.1 → XP_063124738.1 forkhead box protein N1 isoform X1

UniProtKB/TrEMBL

A0A8I6GMI6, A6HH46, D4A1T1
XM_063268669.1 → XP_063124739.1 forkhead box protein N1 isoform X2

UniProtKB/TrEMBL

D4A1T1