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IRX5 iroquois homeobox 5 [ Homo sapiens (human) ]

Gene ID: 10265, updated on 11-Apr-2024

Summary

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Official Symbol
IRX5provided by HGNC
Official Full Name
iroquois homeobox 5provided by HGNC
Primary source
HGNC:HGNC:14361
See related
Ensembl:ENSG00000176842 MIM:606195; AllianceGenome:HGNC:14361
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
HMMS; IRXB2; IRX-2a
Summary
This gene encodes a member of the iroquois homeobox gene family, which are involved in several embryonic developmental processes. Knockout mice lacking this gene show that it is required for retinal cone bipolar cell differentiation, and that it negatively regulates potassium channel gene expression in the heart to ensure coordinated cardiac repolarization. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Nov 2011]
Expression
Biased expression in lung (RPKM 4.8), skin (RPKM 3.3) and 10 other tissues See more
Orthologs
mouse all
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Genomic context

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See IRX5 in Genome Data Viewer
Location:
16q12.2
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (54930865..54934485)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (60728978..60732598)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (54964777..54968397)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105371275 Neighboring gene uncharacterized LOC105371276 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7503 Neighboring gene colorectal neoplasia differentially expressed Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7504 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7505 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7506 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr16:54965529-54966728 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:54968431-54969182 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:54969183-54969932 Neighboring gene uncharacterized LOC124903692 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:54970502-54971064 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:54973318-54973880 Neighboring gene uncharacterized LOC105371277 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr16:54985537-54986736

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Human model of IRX5 mutations reveals key role for this transcription factor in ventricular conduction. Al Sayed ZR, et al. Cardiovasc Res, 2021 Jul 27. PMID 32898233
  2. IRX5 prompts genomic instability in colorectal cancer cells. Sun X, et al. J Cell Biochem, 2020 Nov. PMID 32162364
  3. Transcription factorIRX5 promotes hepatocellular carcinoma proliferation and inhibits apoptosis by regulating the p53 signalling pathway. Zhu L, et al. Cell Biochem Funct, 2020 Jul. PMID 32153043, Free PMC Article
  4. The iroquois homeobox gene 5 is regulated by 1,25-dihydroxyvitamin D3 in human prostate cancer and regulates apoptosis and the cell cycle in LNCaP prostate cancer cells. Myrthue A, et al. Clin Cancer Res, 2008 Jun 1. PMID 18519790
  5. [Irx5: a transcription factor that regulates the cardiac repolarization gradient]. Bruneau BG. Med Sci (Paris), 2006 Mar. PMID 16527195

See all (28) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The Hematopoietic TALE-Code Shows Normal Activity of IRX1 in Myeloid Progenitors and Reveals Ectopic Expression of IRX3 and IRX5 in Acute Myeloid Leukemia.
    Title: The Hematopoietic TALE-Code Shows Normal Activity of IRX1 in Myeloid Progenitors and Reveals Ectopic Expression of IRX3 and IRX5 in Acute Myeloid Leukemia.
  2. A duplication on chromosome 16q12 affecting the IRXB gene cluster is associated with autosomal dominant cone dystrophy with early tritanopic color vision defect.
    Title: A duplication on chromosome 16q12 affecting the IRXB gene cluster is associated with autosomal dominant cone dystrophy with early tritanopic color vision defect.
  3. Human model of IRX5 mutations reveals key role for this transcription factor in ventricular conduction.
    Title: Human model of IRX5 mutations reveals key role for this transcription factor in ventricular conduction.
  4. IRX5 prompts genomic instability in colorectal cancer cells.
    Title: IRX5 prompts genomic instability in colorectal cancer cells.
  5. Iroquois Homeobox 5 Negatively Regulated by miRNA-147 Promotes the Proliferation, Metastasis, and Invasion by Oral Squamous Cell Carcinoma.
    Title: Iroquois Homeobox 5 Negatively Regulated by miRNA-147 Promotes the Proliferation, Metastasis, and Invasion by Oral Squamous Cell Carcinoma.
  6. Extensive pleiotropism and allelic heterogeneity mediate metabolic effects of IRX3 and IRX5.
    Title: Extensive pleiotropism and allelic heterogeneity mediate metabolic effects of IRX3 and IRX5.
  7. Primary preadipocytes from carriers of the obesity risk allele rs1421085, in which expression of IRX3 and IRX5 is increased, displayed excessive accumulation of triglycerides, reduced mitochondrial oxidative capacity, reduced white adipocyte browning, and reduced thermogenesis relative to primary preadipocytes from nonrisk allele carriers.
    Title: FTO Obesity Variant Circuitry and Adipocyte Browning in Humans.
  8. Genome editing in primary preadipocytes to create the obesity risk allele of rs1421085 caused increased expression of IRX3 and IRX5 during early adipocyte differentiation by disrupting a binding site for the ARID5B repressor.
    Title: FTO Obesity Variant Circuitry and Adipocyte Browning in Humans.
  9. Transcription factorIRX5 promotes hepatocellular carcinoma proliferation and inhibits apoptosis by regulating the p53 signalling pathway.
    Title: Transcription factorIRX5 promotes hepatocellular carcinoma proliferation and inhibits apoptosis by regulating the p53 signalling pathway.
  10. our findings suggested that IRX5 promoted CRC metastasis by inhibiting the RHOA-ROCK1-LIMK1 axis, which correlates with a poor prognosis
    Title: IRX5 promotes colorectal cancer metastasis by negatively regulating the core components of the RHOA pathway.
Submit: New GeneRIF Correction See all GeneRIFs (15)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Associated conditions

Description Tests
Craniofacial dysplasia - osteopenia syndrome
MedGen: C1970027 OMIM: 611174 GeneReviews: Not available
Compare labs

EBI GWAS Catalog

Description
Genome-wide association analyses identify variants in developmental genes associated with hypospadias.
EBI GWAS Catalog
Genome-wide association scan for survival on dialysis in African-Americans with type 2 diabetes.
EBI GWAS Catalog
Variability in the common genetic architecture of social-communication spectrum phenotypes during childhood and adolescence.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

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 factor activity, RNA polymerase II-specific ISA
Inferred from Sequence Alignment
more info
  
enables DNA-binding transcription factor binding IEA
Inferred from Electronic Annotation
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 double-stranded DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables vitamin D binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in cell development IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in embryonic cranial skeleton morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in gonad development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in neuron differentiation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in response to stimulus IEA
Inferred from Electronic Annotation
more info
  
involved_in visual perception IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of chromatin ISA
Inferred from Sequence Alignment
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-5
Names
homeodomain protein IRX-2A
homeodomain protein IRXB2

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.

Genomic

  1. NG_032773.1 RefSeqGene

    Range
    4667..8287
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001252197.1 → NP_001239126.1  iroquois-class homeodomain protein IRX-5 isoform 2

    See identical proteins and their annotated locations for NP_001239126.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate, in-frame acceptor splice site at the 3' terminal exon compared to variant 1. This results in an isoform (2) that is 1 aa shorter than isoform 1.
    Source sequence(s)
    AY335945
    Consensus CDS
    CCDS58462.1
    UniProtKB/Swiss-Prot
    P78411
    Related
    ENSP00000316250.5, ENST00000320990.9
    Conserved Domains (2) summary
    smart00548
    Location:326 → 343
    IRO; Motif in Iroquois-class homeodomain proteins (only). Unknown function
    pfam05920
    Location:131 → 170
    Homeobox_KN; Homeobox KN domain

  2. NM_005853.6 → NP_005844.4  iroquois-class homeodomain protein IRX-5 isoform 1

    See identical proteins and their annotated locations for NP_005844.4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC106738, AY335945, BC074850
    Consensus CDS
    CCDS10751.1
    UniProtKB/Swiss-Prot
    H0YMS7, P78411, P78416, Q7Z2E1
    Related
    ENSP00000378132.4, ENST00000394636.9
    Conserved Domains (2) summary
    smart00548
    Location:327 → 344
    IRO; Motif in Iroquois-class homeodomain proteins (only). Unknown function
    pfam05920
    Location:131 → 170
    Homeobox_KN; Homeobox KN domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    54930865..54934485
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011522809.1 → XP_011521111.1  iroquois-class homeodomain protein IRX-5 isoform X1

    Conserved Domains (2) summary
    smart00548
    Location:257 → 274
    IRO; Motif in Iroquois-class homeodomain proteins (only). Unknown function
    pfam05920
    Location:61 → 100
    Homeobox_KN; Homeobox KN domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    60728978..60732598
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054379377.1 → XP_054235352.1  iroquois-class homeodomain protein IRX-5 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P78411.3 GenPept UniProtKB/Swiss-Prot:P78411

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