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IRX4 iroquois homeobox 4 [ Homo sapiens (human) ]

Gene ID: 50805, updated on 3-Oct-2020

Summary

Official Symbol
IRX4provided by HGNC
Official Full Name
iroquois homeobox 4provided by HGNC
Primary source
HGNC:HGNC:6129
See related
Ensembl:ENSG00000113430 MIM:606199
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
IRXA3
Expression
Biased expression in prostate (RPKM 2.5), skin (RPKM 2.0) and 3 other tissues See more
Orthologs

Genomic context

See IRX4 in Genome Data Viewer
Location:
5p15.33
Exon count:
8
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (1877413..1887179, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (1877541..1887293, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene VISTA enhancer hs2567 Neighboring gene long intergenic non-protein coding RNA 2116 Neighboring gene uncharacterized LOC101929081 Neighboring gene IRX4 antisense RNA 1 Neighboring gene uncharacterized LOC112267929

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Genetic determinants of cardiovascular events among women with migraine: a genome-wide association study.
GeneReviews: Not available

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC131996

Gene Ontology Provided by GOA

Process Evidence Code Pubs
cell development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
establishment of animal organ orientation IEA
Inferred from Electronic Annotation
more info
 
heart development IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
neuron differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
nuclear chromatin ISA
Inferred from Sequence Alignment
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
iroquois-class homeodomain protein IRX-4
Names
homeodomain protein IRXA3
iroquois homeobox protein 4

NCBI Reference Sequences (RefSeq)

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_001278632.1NP_001265561.1  iroquois-class homeodomain protein IRX-4 isoform b

    See identical proteins and their annotated locations for NP_001265561.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR and lacks an alternate internal exon compared to variant 4. It encodes isoform b which is shorter than isoform a.
    Source sequence(s)
    AB690778, AC025183, AI566193
    Consensus CDS
    CCDS3867.1
    UniProtKB/Swiss-Prot
    P78413
    Related
    ENSP00000424235.1, ENST00000513692.5
    Conserved Domains (1) summary
    pfam05920
    Location:160199
    Homeobox_KN; Homeobox KN domain
  2. NM_001278633.1NP_001265562.1  iroquois-class homeodomain protein IRX-4 isoform a

    See identical proteins and their annotated locations for NP_001265562.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 4. Both variants 2 and 4 encode the same protein.
    Source sequence(s)
    AB690779, AC025183, AI566193
    Consensus CDS
    CCDS75225.1
    UniProtKB/Swiss-Prot
    P78413
    Related
    ENSP00000481396.1, ENST00000622814.4
    Conserved Domains (1) summary
    pfam05920
    Location:186225
    Homeobox_KN; Homeobox KN domain
  3. NM_001278634.2NP_001265563.1  iroquois-class homeodomain protein IRX-4 isoform b

    See identical proteins and their annotated locations for NP_001265563.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate internal exon compared to variant 4. It encodes isoform b, which is shorter than isoform a.
    Source sequence(s)
    AB690780, AC025183, AI566193
    Consensus CDS
    CCDS3867.1
    UniProtKB/Swiss-Prot
    P78413
    Related
    ENSP00000423161.1, ENST00000505790.5
    Conserved Domains (1) summary
    pfam05920
    Location:160199
    Homeobox_KN; Homeobox KN domain
  4. NM_001278635.2NP_001265564.1  iroquois-class homeodomain protein IRX-4 isoform a

    See identical proteins and their annotated locations for NP_001265564.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) represents the longest transcript. Both variants 2 and 4 encode the same protein.
    Source sequence(s)
    AB690781, AC025183, AI566193
    Consensus CDS
    CCDS75225.1
    UniProtKB/Swiss-Prot
    P78413
    Related
    ENSP00000482393.1, ENST00000613726.4
    Conserved Domains (1) summary
    pfam05920
    Location:186225
    Homeobox_KN; Homeobox KN domain
  5. NM_016358.3NP_057442.1  iroquois-class homeodomain protein IRX-4 isoform b

    See identical proteins and their annotated locations for NP_057442.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and lacks an alternate internal exon compared to variant 4. It encodes isoform b which is shorter than isoform a.
    Source sequence(s)
    AC025183, AF124733, AI566193, BC110912, BC136505
    Consensus CDS
    CCDS3867.1
    UniProtKB/Swiss-Prot
    P78413
    Related
    ENSP00000231357.2, ENST00000231357.7
    Conserved Domains (1) summary
    pfam05920
    Location:160199
    Homeobox_KN; Homeobox KN domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    1877413..1887179 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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