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Aliases for LITAF Gene

Aliases for LITAF Gene

  • Lipopolysaccharide Induced TNF Factor 2 3 5
  • Small Integral Membrane Protein Of Lysosome/Late Endosome 3 4
  • LPS-Induced TNF-Alpha Factor 3 4
  • P53-Induced Gene 7 Protein 3 4
  • SIMPLE 3 4
  • PIG7 3 4
  • Lipopolysaccharide-Induced Tumor Necrosis Factor-Alpha Factor 3
  • Lipopolysaccharide-Induced TNF-Alpha Factor 3
  • Lipopolysaccharide-Induced TNF Factor 2
  • Tumor Protein P53 Inducible Protein 7 3
  • TP53I7 3

External Ids for LITAF Gene

Previous GeneCards Identifiers for LITAF Gene

  • GC16M011795
  • GC16M011608
  • GC16M011549

Summaries for LITAF Gene

Entrez Gene Summary for LITAF Gene

  • Lipopolysaccharide is a potent stimulator of monocytes and macrophages, causing secretion of tumor necrosis factor-alpha (TNF-alpha) and other inflammatory mediators. This gene encodes lipopolysaccharide-induced TNF-alpha factor, which is a DNA-binding protein and can mediate the TNF-alpha expression by direct binding to the promoter region of the TNF-alpha gene. The transcription of this gene is induced by tumor suppressor p53 and has been implicated in the p53-induced apoptotic pathway. Mutations in this gene cause Charcot-Marie-Tooth disease type 1C (CMT1C) and may be involved in the carcinogenesis of extramammary Paget's disease (EMPD). Multiple alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Dec 2014]

GeneCards Summary for LITAF Gene

LITAF (Lipopolysaccharide Induced TNF Factor) is a Protein Coding gene. Diseases associated with LITAF include Charcot-Marie-Tooth Disease, Type 1C and Tooth Disease. Among its related pathways are Lysosome and NF-kappaB Signaling. GO annotations related to this gene include signal transducer activity and WW domain binding. An important paralog of this gene is CDIP1.

UniProtKB/Swiss-Prot for LITAF Gene

  • Probable role in regulating transcription of specific genes. May regulate through NFKB1 the expression of the CCL2/MCP-1 chemokine. May play a role in tumor necrosis factor alpha (TNF-alpha) gene expression.

Gene Wiki entry for LITAF Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LITAF Gene

Genomics for LITAF Gene

Regulatory Elements for LITAF Gene

Enhancers for LITAF Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH16F011608 1.8 FANTOM5 Ensembl ENCODE 69.2 +24.1 24060 8.6 PKNOX1 ARNT CREB3L1 MLX ZFP64 ARID4B DMAP1 YY1 SLC30A9 ZNF143 LITAF ENSG00000261560 TXNDC11 LOC105371084 SOCS1 HNRNPCP4 COX6CP1 ENSG00000261216 SNN ZC3H7A
GH16F011594 1.6 FANTOM5 Ensembl ENCODE 49.4 +39.2 39181 5.2 PKNOX1 ZFP64 FEZF1 YBX1 YY1 ZNF121 ZNF143 FOS TBX21 ZNF623 LITAF SNN TXNDC11 SOCS1 ZC3H7A SNX29 LOC400499
GH16F011639 1.8 FANTOM5 Ensembl ENCODE 43.2 -4.3 -4277 3.3 PKNOX1 ARID4B SIN3A YBX1 DMAP1 ZNF2 YY1 SLC30A9 ZNF766 ZNF143 LITAF TNP2 LOC105371084 ENSG00000261560 ENSG00000199668 ENSG00000212228 PRM3 ENSG00000261293 LOC105371079 MTATP6P24
GH16F011581 1.5 FANTOM5 ENCODE 46.7 +52.0 52045 7.7 HDGF PKNOX1 MLX WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 LITAF TXNDC11 SNN ZC3H7A SNX29 SOCS1 LOC400499
GH16F011617 1.6 FANTOM5 Ensembl ENCODE 41 +14.2 14154 8.7 ZFP64 ARID4B DMAP1 ZNF2 ZNF48 ZNF143 MIER2 REST PPARG KAT8 LITAF ENSG00000199668 RMI2 TXNDC11 SNN ZC3H7A SOCS1 SNX29 LOC400499
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LITAF on UCSC Golden Path with GeneCards custom track

Genomic Location for LITAF Gene

Chromosome:
16
Start:
11,547,722 bp from pter
End:
11,636,381 bp from pter
Size:
88,660 bases
Orientation:
Minus strand

Genomic View for LITAF Gene

Genes around LITAF on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LITAF Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LITAF Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LITAF Gene

Proteins for LITAF Gene

  • Protein details for LITAF Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q99732-LITAF_HUMAN
    Recommended name:
    Lipopolysaccharide-induced tumor necrosis factor-alpha factor
    Protein Accession:
    Q99732
    Secondary Accessions:
    • D3DUG1
    • G5E9K0
    • Q05DW0
    • Q9C0L6

    Protein attributes for LITAF Gene

    Size:
    161 amino acids
    Molecular mass:
    17107 Da
    Quaternary structure:
    • Interacts with NEDD4 (By similarity). Interacts with WWOX. Isoform 2 may interact with STAT6.

    Alternative splice isoforms for LITAF Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LITAF Gene

Post-translational modifications for LITAF Gene

  • Ubiquitination at Lys 159
  • Modification sites at PhosphoSitePlus

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for LITAF (LITAF)

No data available for DME Specific Peptides for LITAF Gene

Domains & Families for LITAF Gene

Protein Domains for LITAF Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LITAF Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q99732

UniProtKB/Swiss-Prot:

LITAF_HUMAN :
  • The WW-binding motif mediates interaction with WWOX and, probably NEDD4.
  • Belongs to the CDIP1/LITAF family.
Domain:
  • The WW-binding motif mediates interaction with WWOX and, probably NEDD4.
Family:
  • Belongs to the CDIP1/LITAF family.
genes like me logo Genes that share domains with LITAF: view

No data available for Gene Families for LITAF Gene

Function for LITAF Gene

Molecular function for LITAF Gene

UniProtKB/Swiss-Prot Function:
Probable role in regulating transcription of specific genes. May regulate through NFKB1 the expression of the CCL2/MCP-1 chemokine. May play a role in tumor necrosis factor alpha (TNF-alpha) gene expression.
UniProtKB/Swiss-Prot Induction:
By bacterial lipopolysaccharides (LPS) or p53/TP53. In monocytes by the Bacillus Calmette-Guerin (BCG).

Gene Ontology (GO) - Molecular Function for LITAF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004871 signal transducer activity IMP 12761501
GO:0005515 protein binding IPI 15064722
GO:0050699 WW domain binding IPI 15064722
genes like me logo Genes that share ontologies with LITAF: view
genes like me logo Genes that share phenotypes with LITAF: view

Human Phenotype Ontology for LITAF Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for LITAF Gene

MGI Knock Outs for LITAF:

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for LITAF Gene

Localization for LITAF Gene

Subcellular locations from UniProtKB/Swiss-Prot for LITAF Gene

Lysosome membrane; Peripheral membrane protein; Cytoplasmic side. Note=Associated with membranes of lysosomes.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LITAF gene
Compartment Confidence
plasma membrane 5
nucleus 5
cytosol 5
lysosome 5
golgi apparatus 5
extracellular 2
endosome 2

Gene Ontology (GO) - Cellular Components for LITAF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IDA --
GO:0005764 lysosome IEA --
GO:0005765 lysosomal membrane IDA 11274176
GO:0005794 Golgi apparatus IMP 16118794
genes like me logo Genes that share ontologies with LITAF: view

Pathways & Interactions for LITAF Gene

SuperPathways for LITAF Gene

SuperPathway Contained pathways
1 Lysosome
2 NF-kappaB Signaling
genes like me logo Genes that share pathways with LITAF: view

Pathways by source for LITAF Gene

1 Cell Signaling Technology pathway for LITAF Gene
1 KEGG pathway for LITAF Gene

Gene Ontology (GO) - Biological Process for LITAF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001817 regulation of cytokine production IEA --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006357 regulation of transcription from RNA polymerase II promoter TAS 10200294
GO:0006915 apoptotic process IEA --
genes like me logo Genes that share ontologies with LITAF: view

No data available for SIGNOR curated interactions for LITAF Gene

Drugs & Compounds for LITAF Gene

(1) Additional Compounds for LITAF Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with LITAF: view

Transcripts for LITAF Gene

Unigene Clusters for LITAF Gene

Lipopolysaccharide-induced TNF factor:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LITAF Gene

ExUns: 1 ^ 2a · 2b ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11a · 11b · 11c ^ 12a · 12b ^ 13a · 13b · 13c · 13d · 13e · 13f · 13g ·
SP1: - - - - - - - - -
SP2: - - - - - - - -
SP3: - - - - - - - - -
SP4: - - - - - - - - - - - - - - -
SP5: - - - - - - - - - - -
SP6: - - - - - - - - - - - - -
SP7: - - - - - - - - - -
SP8: - - - - - - - - - - -
SP9: - - - - - - - - -
SP10: - - - - - - - - -
SP11: - -
SP12: - - - -
SP13: - - - - - - -
SP14: - - - -
SP15: - - - - - -

ExUns: 13h · 13i
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:
SP15:

Relevant External Links for LITAF Gene

GeneLoc Exon Structure for
LITAF
ECgene alternative splicing isoforms for
LITAF

Expression for LITAF Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LITAF Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LITAF Gene

This gene is overexpressed in Whole Blood (x16.5).

Protein differential expression in normal tissues from HIPED for LITAF Gene

This gene is overexpressed in Oral epithelium (32.0), Colon (6.8), and Pancreas (6.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for LITAF Gene



NURSA nuclear receptor signaling pathways regulating expression of LITAF Gene:

LITAF

SOURCE GeneReport for Unigene cluster for LITAF Gene:

Hs.459940

mRNA Expression by UniProt/SwissProt for LITAF Gene:

Q99732-LITAF_HUMAN
Tissue specificity: Ubiquitously and abundantly expressed. Expressed predominantly in the placenta, peripheral blood leukocytes, lymph nodes and spleen.
genes like me logo Genes that share expression patterns with LITAF: view

Primer Products

No data available for Protein tissue co-expression partners for LITAF Gene

Orthologs for LITAF Gene

This gene was present in the common ancestor of animals.

Orthologs for LITAF Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LITAF 34 35
  • 99.17 (n)
cow
(Bos Taurus)
Mammalia LITAF 34 35
  • 86.13 (n)
dog
(Canis familiaris)
Mammalia LITAF 34 35
  • 86.13 (n)
rat
(Rattus norvegicus)
Mammalia Litaf 34
  • 81.37 (n)
mouse
(Mus musculus)
Mammalia Litaf 34 16 35
  • 80.95 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 77 (a)
OneToMany
-- 35
  • 70 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia LITAF 35
  • 75 (a)
OneToOne
chicken
(Gallus gallus)
Aves LITAF 34 35
  • 67.68 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia litaf 34
  • 63.72 (n)
MGC75991 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.21754 34
zebrafish
(Danio rerio)
Actinopterygii litaf 34 35
  • 55.56 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG32280 35
  • 33 (a)
ManyToMany
CG13559 35
  • 21 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea F36G3.3 35
  • 24 (a)
OneToMany
Species where no ortholog for LITAF was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for LITAF Gene

ENSEMBL:
Gene Tree for LITAF (if available)
TreeFam:
Gene Tree for LITAF (if available)

Paralogs for LITAF Gene

Paralogs for LITAF Gene

genes like me logo Genes that share paralogs with LITAF: view

Variants for LITAF Gene

Sequence variations from dbSNP and Humsavar for LITAF Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type
rs104894519 Charcot-Marie-Tooth disease 1C (CMT1C) [MIM:601098], Pathogenic 11,553,576(-) ACGCC(A/G)GTGCT nc-transcript-variant, reference, missense
rs104894520 Charcot-Marie-Tooth disease 1C (CMT1C) [MIM:601098], Pathogenic 11,553,566(-) TCTGA(A/C)CTGGC nc-transcript-variant, reference, missense
rs104894521 Charcot-Marie-Tooth disease 1C (CMT1C) [MIM:601098], Pathogenic 11,553,564(-) TGACC(G/T)GGCTG nc-transcript-variant, reference, missense
rs104894522 Charcot-Marie-Tooth disease 1C (CMT1C) [MIM:601098], Pathogenic 11,553,546(-) GGAGC(C/G)TGTGC nc-transcript-variant, reference, missense
rs141862602 Charcot-Marie-Tooth disease 1C (CMT1C) [MIM:601098], Uncertain significance 11,556,585(+) GCCCC(A/G)TCACA nc-transcript-variant, reference, missense

Structural Variations from Database of Genomic Variants (DGV) for LITAF Gene

Variant ID Type Subtype PubMed ID
nsv952921 CNV deletion 24416366
nsv571456 CNV gain 21841781
nsv524676 CNV loss 19592680
nsv457409 CNV gain 19166990
nsv1160341 CNV deletion 26073780
esv991827 CNV deletion 20482838
esv3637930 CNV loss 21293372
esv3582010 CNV loss 25503493
esv3553118 CNV deletion 23714750
dgv2729n100 CNV gain 25217958

Variation tolerance for LITAF Gene

Residual Variation Intolerance Score: 53.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.74; 15.69% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LITAF Gene

Human Gene Mutation Database (HGMD)
LITAF
SNPedia medical, phenotypic, and genealogical associations of SNPs for
LITAF

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LITAF Gene

Disorders for LITAF Gene

MalaCards: The human disease database

(10) MalaCards diseases for LITAF Gene - From: OMIM, ClinVar, GeneTests, Orphanet, Swiss-Prot, DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
charcot-marie-tooth disease, type 1c
  • charcot-marie-tooth disease, demyelinating, type 1c
tooth disease
  • dental disorder
peroneal neuropathy
  • peroneal neuropathies
charcot-marie-tooth disease
  • hereditary motor and sensory neuropathy
hereditary neuropathy with liability to pressure palsy
  • hnpp
- elite association - COSMIC cancer census association via MalaCards
Search LITAF in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

LITAF_HUMAN
  • Charcot-Marie-Tooth disease 1C (CMT1C) [MIM:601098]: A dominant demyelinating form of Charcot-Marie-Tooth disease, a disorder of the peripheral nervous system, characterized by progressive weakness and atrophy, initially of the peroneal muscles and later of the distal muscles of the arms. Charcot-Marie-Tooth disease is classified in two main groups on the basis of electrophysiologic properties and histopathology: primary peripheral demyelinating neuropathies (designated CMT1 when they are dominantly inherited) and primary peripheral axonal neuropathies (CMT2). Demyelinating neuropathies are characterized by severely reduced nerve conduction velocities (less than 38 m/sec), segmental demyelination and remyelination with onion bulb formations on nerve biopsy, slowly progressive distal muscle atrophy and weakness, absent deep tendon reflexes, and hollow feet. {ECO:0000269 PubMed:12525712, ECO:0000269 PubMed:15776429, ECO:0000269 PubMed:15786462}. Note=The disease is caused by mutations affecting the gene represented in this entry.
  • Note=Defects in LITAF may be involved in extramammary Paget disease (EMPD) carcinogenesis. EMPD is a cancerous disease representing about 8% of all malignant skin cancers; it usually appears in the anogenital area and can be fatal by metastasizing to internal organs when left untreated for a long time. The clinical features are usually those of eczematous eruptions with weeping and crust formation. {ECO:0000269 PubMed:15197774}.

Relevant External Links for LITAF

Genetic Association Database (GAD)
LITAF
Human Genome Epidemiology (HuGE) Navigator
LITAF
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LITAF
genes like me logo Genes that share disorders with LITAF: view

No data available for Genatlas for LITAF Gene

Publications for LITAF Gene

  1. A novel lipopolysaccharide-induced transcription factor regulating tumor necrosis factor alpha gene expression: molecular cloning, sequencing, characterization, and chromosomal assignment. (PMID: 10200294) Myokai F. … Amar S. (Proc. Natl. Acad. Sci. U.S.A. 1999) 2 3 4 22 64
  2. Mutation frequency for Charcot-Marie-Tooth disease type 1 in the Chinese population is similar to that in the global ethnic patients. (PMID: 16912585) Song S. … Zhong N. (Genet. Med. 2006) 3 22 46 64
  3. SIMPLE mutations in Charcot-Marie-Tooth disease and the potential role of its protein product in protein degradation. (PMID: 15776429) Saifi G.M. … Lupski J.R. (Hum. Mutat. 2005) 3 4 22 64
  4. LPS induces the interaction of a transcription factor, LPS-induced TNF-alpha factor, and STAT6(B) with effects on multiple cytokines. (PMID: 15793005) Tang X. … Amar S. (Proc. Natl. Acad. Sci. U.S.A. 2005) 3 4 22 64
  5. Mutation of a putative protein degradation gene LITAF/SIMPLE in Charcot-Marie-Tooth disease 1C. (PMID: 12525712) Street V.A. … Chance P.F. (Neurology 2003) 3 4 22 64

Products for LITAF Gene

Sources for LITAF Gene

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