Irx1 Iroquois homeobox 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Irx1provided by MGI
Official Full Name: Iroquois homeobox 1provided by MGI
Primary source: MGI:MGI:1197515
See related: Ensembl:ENSMUSG00000060969 AllianceGenome:MGI:1197515
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
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. Involved in proximal/distal pattern formation involved in metanephric nephron development and specification of loop of Henle identity. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including alimentary system; autopod; central nervous system; metanephros; and respiratory system. Human ortholog(s) of this gene implicated in congenital heart disease. Orthologous to human IRX1 (iroquois homeobox 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in lung adult (RPKM 102.7), mammary gland adult (RPKM 39.1) and 8 other tissues See more
Orthologs: human all
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Genomic context

Location:: 13 C1; 13 38.43 cM

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	13	NC_000079.7 (72106351..72111842, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	13	NC_000079.6 (71958232..71963723, complement)

Chromosome 13 - NC_000079.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

IRX1 ameliorates sepsis-induced acute kidney injury in mice by promoting CXCL14.
Title: IRX1 ameliorates sepsis-induced acute kidney injury in mice by promoting CXCL14.
Irx1 regulates Foxj1 and Sox9 to control cell differentiation during development.
Title: Irx1 regulates dental outer enamel epithelial and lung alveolar type II epithelial differentiation.
This homeobox protein is expressed during digit development and is an early marker for this development.
Title: Expression pattern of Irx1 and Irx2 during mouse digit development.
This homeobox protein is expressed during early lung development.
Title: Irx1 and Irx2 expression in early lung development.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (3)
Targeted (2)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AI426466 (e-PCR)
- UniSTS:160319

Irx1 (e-PCR), detects polymorphism
- UniSTS:498330

RH136785 (e-PCR)
- UniSTS:218874

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
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	IEA Inferred from Electronic Annotation 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 sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	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 development	IBA Inferred from Biological aspect of Ancestor more info
involved_in metanephros development	IEP Inferred from Expression Pattern more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	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 neuron differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of gene expression	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in proximal/distal pattern formation involved in metanephric nephron development	IEP Inferred from Expression Pattern more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to organic cyclic compound	IEA Inferred from Electronic Annotation more info
involved_in response to organic cyclic compound	ISO Inferred from Sequence Orthology more info
involved_in specification of loop of Henle identity	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in nucleoplasm	TAS Traceable Author Statement more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: iroquois-class homeodomain protein IRX-1

Names: Iroquois related homeobox 1; homeodomain protein IRXA1; iroquois homeobox 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)

NM_010573.2 → NP_034703.2 iroquois-class homeodomain protein IRX-1

See identical proteins and their annotated locations for NP_034703.2

Status: VALIDATED

Source sequence(s)

AK133937, AW491133, CO043226

Consensus CDS

CCDS26627.1

UniProtKB/Swiss-Prot

G5E8H6, O55120, P81068, Q3UZB9, Q9JLL6

Related

ENSMUSP00000076562.9, ENSMUST00000077337.9

Conserved Domains (3) summary

smart00548
Location:309 → 326

IRO; Motif in Iroquois-class homeodomain proteins (only). Unknown function

pfam05285
Location:194 → 252

SDA1; SDA1

pfam05920
Location:145 → 184

Homeobox_KN; Homeobox KN domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000079.7 Reference GRCm39 C57BL/6J

Range

72106351..72111842 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036157861.1 → XP_036013754.1 iroquois-class homeodomain protein IRX-1 isoform X1

Conserved Domains (3) summary

smart00548
Location:148 → 165

IRO; Motif in Iroquois-class homeodomain proteins (only). Unknown function

cl00084
Location:1 → 23

homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.

cl01319
Location:27 → 86

HARE-HTH; HB1, ASXL, restriction endonuclease HTH domain