litaf lipopolysaccharide-induced TNF factor [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: litafprovided by ZNC
Official Full Name: lipopolysaccharide-induced TNF factorprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040704-23
See related: Ensembl:ENSDARG00000103483 AllianceGenome:ZFIN:ZDB-GENE-040704-23
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: fb12g04; zgc:91882; id:ibd5018; wu:fb12g04
Summary: Predicted to enable zinc ion binding activity. Predicted to be located in cytoplasmic side of early endosome membrane 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 pronephric duct and pronephric duct opening. 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, Nov 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 3

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	3	NC_007114.7 (43825999..43831030)
105	previous assembly	GRCz10 (GCF_000002035.5)	3	NC_007114.6 (43124839..43130113)

Chromosome 3 - NC_007114.7 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: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Lipopolysaccharide-induced TNFalpha factor (LITAF) promotes inflammatory responses and activates apoptosis in zebrafish Danio rerio.
Title: Lipopolysaccharide-induced TNFα factor (LITAF) promotes inflammatory responses and activates apoptosis in zebrafish Danio rerio.
LITAF acts as an adaptor protein promoting NEDD4-mediated ubiquitination and subsequent degradation of L-type calcium channel.
Title: LITAF (Lipopolysaccharide-Induced Tumor Necrosis Factor) Regulates Cardiac L-Type Calcium Channels by Modulating NEDD (Neural Precursor Cell Expressed Developmentally Downregulated Protein) 4-1 Ubiquitin Ligase.

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	IBA Inferred from Biological aspect of Ancestor more info
enables zinc ion binding	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IEA Inferred from Electronic Annotation 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	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	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasmic side of plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in early endosome membrane	IEA Inferred from Electronic Annotation more info
located_in endosome	IEA Inferred from Electronic Annotation more info
located_in late endosome membrane	IEA Inferred from Electronic Annotation more info
located_in lysosomal membrane	IEA Inferred from Electronic Annotation more info
located_in lysosome	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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

Names: LPS-induced TNF-alpha factor homolog

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_001002184.1 → NP_001002184.1 lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog

See identical proteins and their annotated locations for NP_001002184.1

Status: PROVISIONAL

Source sequence(s)

BC074085

UniProtKB/Swiss-Prot

Q6GMG8

Related

ENSDARP00000130720.1, ENSDART00000157619.2

Conserved Domains (1) summary

pfam10601
Location:93 → 161

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

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007114.7 Reference GRCz11 Primary Assembly

Range

43825999..43831030

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_009299704.4 → XP_009297979.1 lipopolysaccharide-induced tumor necrosis factor-alpha factor homolog isoform X1

UniProtKB/TrEMBL

A0A8M3AR44

Conserved Domains (1) summary

pfam10601
Location:92 → 160

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