Irx5 iroquois homeobox 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Irx5provided by RGD
Official Full Name: iroquois homeobox 5provided by RGD
Primary source: RGD:1565518
See related: EnsemblRapid:ENSRNOG00000011180 AllianceGenome:RGD:1565518
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
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including embryonic cranial skeleton morphogenesis; gonad development; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within neuron differentiation; regulation of gene expression; and regulation of heart rate. Predicted to be active in nucleus. Orthologous to human IRX5 (iroquois homeobox 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Heart (RPKM 40.9), Kidney (RPKM 35.7) and 5 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 19p11

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	19	NC_086037.1 (30812033..30816885, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	19	NC_051354.1 (14639052..14643911, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	19	NC_005118.4 (16415813..16421088)

Chromosome 19 - NC_086037.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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?

Irx5 plays an important role in VSMC G1/S-phase cell cycle checkpoint control.
Title: Iroquois homeobox transcription factor (Irx5) promotes G1/S-phase transition in vascular smooth muscle cells by CDK2-dependent activation.
Interaction between transcription factors Iroquois proteins 4 and 5 controls cardiac potassium channel Kv4.2 gene transcription across the left ventricular wall of rodent hearts.
Title: Interaction between transcription factors Iroquois proteins 4 and 5 controls cardiac potassium channel Kv4.2 gene transcription.

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General gene information

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Markers

Irx5 (e-PCR), detects polymorphism
- UniSTS:532301

Irx5 (e-PCR), detects polymorphism
- UniSTS:515969

Gene Ontology Provided by RGD

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 binding	IPI Inferred from Physical Interaction more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
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
acts_upstream_of_or_within cell development	ISO Inferred from Sequence Orthology more info
involved_in embryonic cranial skeleton morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in gonad development	ISO Inferred from Sequence Orthology more info
involved_in neuron differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within neuron maturation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of heart rate	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 regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within retinal bipolar neuron differentiation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
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: iroquois homeobox protein 5

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_001030044.1 → NP_001025215.1 iroquois-class homeodomain protein IRX-5

See identical proteins and their annotated locations for NP_001025215.1

Status: PROVISIONAL

Source sequence(s)

DQ109812

UniProtKB/TrEMBL

A0A0G2K2M1, A6KD61, Q45V74

Related

ENSRNOP00000072299.2, ENSRNOT00000089975.3

Conserved Domains (2) summary

smart00548
Location:328 → 345

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

pfam05920
Location:130 → 169

Homeobox_KN; Homeobox KN domain

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_086037.1 Reference GRCr8

Range

30812033..30816885 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006255197.5 → XP_006255259.1 iroquois-class homeodomain protein IRX-5 isoform X1

UniProtKB/TrEMBL

A0A0G2K2M1, A6KD61

Conserved Domains (2) summary

smart00548
Location:254 → 271

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

pfam05920
Location:56 → 95

Homeobox_KN; Homeobox KN domain