Id3 inhibitor of DNA binding 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Id3provided by RGD
Official Full Name: inhibitor of DNA binding 3provided by RGD
Primary source: RGD:2860
See related: AllianceGenome:RGD:2860
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
Summary: Predicted to enable several functions, including bHLH transcription factor binding activity; leptomycin B binding activity; and transcription regulator inhibitor activity. Involved in neuron differentiation; positive regulation of apoptotic process; and regulation of DNA replication. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human ID3 (inhibitor of DNA binding 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Lung (RPKM 728.5), Thymus (RPKM 535.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q36

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (153656253..153657860)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (148372784..148374353)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (154489603..154491172)

Chromosome 5 - NC_086023.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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 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?

The function of GLCE in neuritogenesis via SMAD/ID3 signalling was studied via mutagenesis and gene silencing studies.
Title: GLCE regulates PC12 cell neuritogenesis induced by nerve growth factor through activating SMAD/ID3 signalling.
relevant interaction of GKLF, Id3, and p53 for VSMC proliferation
Title: Interaction of Inhibitor of DNA binding 3 (Id3) with Gut-enriched Krüppel-like factor (GKLF) and p53 regulates proliferation of vascular smooth muscle cells.
Id2, Id3, and Id4 proteins have roles in vibrissae follicle development
Title: Id2, Id3, and Id4 proteins show dynamic changes in expression during vibrissae follicle development.
Expression of all 4 members of the Id family of transcription factors is differentially regulated in response to orchidectomy along the epididymis.
Title: Expression, localization, and regulation of inhibitor of DNA binding (Id) proteins in the rat epididymis.
induced in the presence of Epstein-Barr virus LMP1 and confirmed by mRNA and protein in C33A and Rat-1 cells
Title: Induction of Id1 and Id3 by latent membrane protein 1 of Epstein-Barr virus and regulation of p27/Kip and cyclin-dependent kinase 2 in rodent fibroblast transformation.
Phosphorylation of the helix-loop-helix factor Id3 in VSMCs occurs in vitro and in vivo and provides a regulatory switch controlling Id3-induced regulation of p21Cip1 and VSMC growth.
Title: Phosphorylation regulates Id3 function in vascular smooth muscle cells.
upregulated by estrogen in vascular smooth muscle cells
Title: Caveolin-1, Id3a and two LIM protein genes are upregulated by estrogen in vascular smooth muscle cells.
Intron retention generates a novel Id3 isoform that inhibits vascular lesion formation
Title: Intron retention generates a novel Id3 isoform that inhibits vascular lesion formation.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH133827 (e-PCR)
- UniSTS:217110

UniSTS:235067 (e-PCR)
- UniSTS:235067

PMC133998P6 (e-PCR)
- UniSTS:270711

Id3 (e-PCR)
- UniSTS:545950

Id3 (e-PCR)
- UniSTS:256941

UniSTS:256941 (e-PCR)
- UniSTS:256941

PMC305683P3 (e-PCR)
- UniSTS:272559

RH94538 (e-PCR)
- UniSTS:119786

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables bHLH transcription factor binding	ISO Inferred from Sequence Orthology more info
enables bHLH transcription factor binding	TAS Traceable Author Statement more info	PubMed
enables leptomycin B binding	ISO Inferred from Sequence Orthology more info
enables protein dimerization activity	IEA Inferred from Electronic Annotation more info
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info
enables protein domain specific binding	TAS Traceable Author Statement more info	PubMed
enables transcription corepressor activity	IBA Inferred from Biological aspect of Ancestor more info
enables transcription regulator inhibitor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cellular response to leptomycin B	ISO Inferred from Sequence Orthology more info
involved_in central nervous system development	ISO Inferred from Sequence Orthology more info
involved_in circadian rhythm	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within epithelial cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within heart development	ISO Inferred from Sequence Orthology more info
involved_in metanephros development	ISO Inferred from Sequence Orthology more info
involved_in muscle organ development	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell differentiation	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within negative regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of myoblast differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of osteoblast differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within 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 neuron differentiation	IEP Inferred from Expression Pattern more info	PubMed
involved_in notochord development	ISO Inferred from Sequence Orthology more info
involved_in odontogenesis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell population proliferation	TAS Traceable Author Statement more info	PubMed
involved_in positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA replication	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: DNA-binding protein inhibitor ID-3

Names: inhibitor of DNA binding 3, HLH protein; inhibitor of DNA binding 3, dominant negative helix-loop-helix protein; inhibitor of differentiation 3

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_001429352.1 → NP_001416281.1 DNA-binding protein inhibitor ID-3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005

UniProtKB/Swiss-Prot

P41138

UniProtKB/TrEMBL

A6IT99
NM_013058.3 → NP_037190.1 DNA-binding protein inhibitor ID-3

See identical proteins and their annotated locations for NP_037190.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005

UniProtKB/Swiss-Prot

P41138

UniProtKB/TrEMBL

A6IT99

Conserved Domains (1) summary

cd19693
Location:23 → 83

bHLH_dnHLH_ID3; basic helix-loop-helix (bHLH) domain found in DNA-binding protein inhibitor ID3 and similar proteins