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

Gene ID: 56722, updated on 8-Nov-2022

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 NIK/NF-kappaB signaling; and regulation of cytokine production. Predicted to be located in several cellular components, including cytoplasmic side of endosome membrane; cytoplasmic side of lysosomal membrane; and cytoplasmic side of plasma membrane. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; retina nuclear layer; and vibrissa. 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, Apr 2022]
Expression
Ubiquitous expression in colon adult (RPKM 67.6), genital fat pad adult (RPKM 52.8) and 27 other tissues See more
Orthologs
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Genomic context

See Litaf in Genome Data Viewer
Location:
16; 16 A1
Exon count:
5
Annotation release Status Assembly Chr Location
109 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_000082.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 53936 Neighboring gene predicted gene, 21859 Neighboring gene predicted gene 4262 Neighboring gene predicted gene 10832 Neighboring gene MRT4, mRNA turnover 4 pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding 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 ISO
Inferred from Sequence Orthology
more info
 
enables WW domain binding ISO
Inferred from Sequence Orthology
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
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
PubMed 
enables zinc ion binding ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in cytoplasmic side of early endosome membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in cytoplasmic side of late endosome membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytoplasmic side of late endosome membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in cytoplasmic side of lysosomal membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytoplasmic side of lysosomal membrane ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasmic side of plasma membrane ISO
Inferred from Sequence Orthology
more info
 
located_in endosome IEA
Inferred from Electronic Annotation
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 lysosome IEA
Inferred from Electronic Annotation
more info
 
located_in membrane 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
PubMed 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 

General protein information

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)

  1. NM_019980.2NP_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:91159
    zf-LITAF-like; LITAF-like zinc ribbon domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000082.7 Reference GRCm39 C57BL/6J

    Range
    10777137..10810985 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

    UniProtKB/Swiss-Prot
    Q9EQI0
    Related
    ENSMUSP00000112667.2, ENSMUST00000117360.8
    Conserved Domains (1) summary
    pfam10601
    Location:91159
    zf-LITAF-like; LITAF-like zinc ribbon domain