Litaf LPS-induced TN factor [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Litafprovided by MGI
Official Full Name: LPS-induced TN factorprovided by MGI
Primary source: MGI:MGI:1929512
See related: Ensembl:ENSMUSG00000022500 AllianceGenome:MGI:1929512
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
Also known as: TBX1; N4WBP3; 3222402J11Rik
Summary: Predicted to enable several functions, including DNA-binding transcription activator activity, RNA polymerase II-specific; WW domain binding activity; and zinc ion binding activity. Acts upstream of or within cellular response to lipopolysaccharide; negative regulation of non-canonical NF-kappaB signal transduction; and regulation of macrophage cytokine production. Predicted to be located in several cellular components, including Golgi apparatus; bounding membrane of organelle; and cytoplasmic side of plasma membrane. Predicted to be active in cytoplasmic side of late endosome membrane; cytoplasmic side of lysosomal membrane; and nucleus. Is expressed in several structures, including central nervous system; genitourinary system; retina nuclear layer; submandibular gland primordium; and tooth. Used to study Charcot-Marie-Tooth disease type 1C. Human ortholog(s) of this gene implicated in Charcot-Marie-Tooth disease type 1C. Orthologous to human LITAF (lipopolysaccharide induced TNF factor). [provided by Alliance of Genome Resources, Oct 2024]
Expression: Ubiquitous expression in colon adult (RPKM 67.6), genital fat pad adult (RPKM 52.8) and 27 other tissues See more
Orthologs: human all
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Genomic context

Location:: 16 A1; 16 6.28 cM

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	16	NC_000082.7 (10777137..10810985, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	16	NC_000082.6 (10959273..10993121, complement)

Chromosome 16 - NC_000082.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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See details

Project title: Mouse ENCODE transcriptome data 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?

LITAF Promotes Atherosclerotic Plaque Formation by Stimulating the NF-kappaB Inflammatory Pathway.
Title: LITAF Promotes Atherosclerotic Plaque Formation by Stimulating the NF-κB Inflammatory Pathway.
LITAF acts as a novel regulator for pathological cardiac hypertrophy.
Title: LITAF acts as a novel regulator for pathological cardiac hypertrophy.
SIMPLE Is an Endosomal Regulator That Protects Against NAFLD by Targeting the Lysosomal Degradation of EGFR.
Title: SIMPLE Is an Endosomal Regulator That Protects Against NAFLD by Targeting the Lysosomal Degradation of EGFR.
Sequential CRISPR-Based Screens Identify LITAF and CDIP1 as the Bacillus cereus Hemolysin BL Toxin Host Receptors.
Title: Sequential CRISPR-Based Screens Identify LITAF and CDIP1 as the Bacillus cereus Hemolysin BL Toxin Host Receptors.
results indicate that SIMPLE may regulate protein trafficking physiologically by localizing to the TGN and/or REs by binding PI4P.
Title: SIMPLE binds specifically to PI4P through SIMPLE-like domain and participates in protein trafficking in the trans-Golgi network and/or recycling endosomes.
Suggest LITAF as regulatory of pro-inflammatory and pro-fibrogenic pattern in non-alcoholic fatty liver disease.
Title: LPS-induced TNF-α factor mediates pro-inflammatory and pro-fibrogenic pattern in non-alcoholic fatty liver disease.
Data suggest that atypical inflammatory signaling kinetics may account for the gain of function elicited by the Litaf protein SIMPLE mutation in Charcot-Marie-Tooth Type 1C (CMT1C) patients.
Title: Dysregulated Inflammatory Signaling upon Charcot-Marie-Tooth Type 1C Mutation of SIMPLE Protein.
Mutation of SIMPLE (Litaf) in Charcot-Marie-Tooth 1C alters production of exosomes.
Title: Mutation of SIMPLE in Charcot-Marie-Tooth 1C alters production of exosomes.
This study demonistrated that loss of Litaf function is unlikely to be a major contributor to Charcot-Marie-Tooth disease, but modulating effects of macrophages need to be considered in the etiology of the disease.
Title: LITAF (SIMPLE) regulates Wallerian degeneration after injury but is not essential for peripheral nerve development and maintenance: implications for Charcot-Marie-Tooth disease.
Study provides evidence that LITAF contributes to the regulation of TNF-alpha in LPM harvested following acute inflammation.
Title: LITAF mediation of increased TNF-α secretion from inflamed colonic lamina propria macrophages.

Submit: New GeneRIF Correction See all GeneRIFs (15)

Variation

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Alleles

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

Endonuclease-mediated (7) 1 citation
Targeted (4) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AW742604 (e-PCR)
- UniSTS:209164

RH127202 (e-PCR)
- UniSTS:209165

Tbx1 (e-PCR), detects polymorphism
- UniSTS:265753

Litaf (e-PCR), detects polymorphism
- UniSTS:546846

Litaf (e-PCR), detects polymorphism
- UniSTS:463459

Litaf (e-PCR), detects polymorphism
- UniSTS:463460

Litaf (e-PCR), detects polymorphism
- UniSTS:463461

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables WW domain binding	ISO Inferred from Sequence Orthology more info
enables WW domain binding	ISS Inferred from Sequence or Structural Similarity more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables zinc ion binding	IBA Inferred from Biological aspect of Ancestor more info
enables zinc ion binding	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cellular response to lipopolysaccharide	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of non-canonical NF-kappaB signal transduction	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of canonical NF-kappaB signal transduction	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of cytokine production	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of macrophage cytokine production	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within response to lipopolysaccharide	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in Golgi apparatus	ISS Inferred from Sequence or Structural Similarity more info
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic side of early endosome membrane	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic side of early endosome membrane	ISS Inferred from Sequence or Structural Similarity more info
is_active_in cytoplasmic side of late endosome membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic side of late endosome membrane	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic side of late endosome membrane	ISS Inferred from Sequence or Structural Similarity more info
is_active_in cytoplasmic side of lysosomal membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic side of lysosomal membrane	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic side of lysosomal membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasmic side of plasma membrane	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic side of plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in lysosomal membrane	ISO Inferred from Sequence Orthology more info	PubMed
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog

Names: LITAF-like protein; LPS-induced TNF-alpha factor homolog; Nedd4 WW domain-binding protein 3; estrogen-enhanced transcript protein; mEET

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_019980.2 → NP_064364.1 lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog

See identical proteins and their annotated locations for NP_064364.1

Status: VALIDATED

Source sequence(s)

AK076162, BX637242

Consensus CDS

CCDS27958.1

UniProtKB/Swiss-Prot

Q9EQI0, Q9JLJ0

Related

ENSMUSP00000023143.8, ENSMUST00000023143.14

Conserved Domains (1) summary

pfam10601
Location:91 → 159

zf-LITAF-like; LITAF-like zinc ribbon 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_000082.7 Reference GRCm39 C57BL/6J

Range

10777137..10810985 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_030249222.2 → XP_030105082.1 lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog isoform X1

UniProtKB/Swiss-Prot

Q9EQI0, Q9JLJ0

Related

ENSMUSP00000112667.2, ENSMUST00000117360.8

Conserved Domains (1) summary

pfam10601
Location:91 → 159

zf-LITAF-like; LITAF-like zinc ribbon domain