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lyst lysosomal trafficking regulator [ Danio rerio (zebrafish) ]

Gene ID: 100150726, updated on 27-Mar-2024

Summary

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Official Symbol
lystprovided by ZNC
Official Full Name
lysosomal trafficking regulatorprovided by ZNC
Primary source
ZFIN:ZDB-GENE-070702-1
See related
AllianceGenome:ZFIN:ZDB-GENE-070702-1
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
si:ch211-30i2.1
Summary
Predicted to enable protein kinase binding activity. Predicted to be involved in protein localization. Predicted to act upstream of or within lysosome organization. Predicted to be active in cytosol and membrane. Human ortholog(s) of this gene implicated in Chediak-Higashi syndrome. Orthologous to human LYST (lysosomal trafficking regulator). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 13
Exon count:
56
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 13 NC_007124.7 (49866497..50062745, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 13 NC_007124.6 (49553049..49749498, complement)

Chromosome 13 - NC_007124.7Genomic Context describing neighboring genes Neighboring gene beta-1,3-N-acetylgalactosaminyltransferase 2 Neighboring gene G protein subunit gamma 4 Neighboring gene nidogen 1a Neighboring gene G protein-coupled receptor 137Ba

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: 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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Related articles in PubMed

  1. A post-developmental genetic screen for zebrafish models of inherited liver disease. Kim SH, et al. PLoS One, 2015. PMID 25950913, Free PMC Article
  2. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables protein kinase binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in protein localization IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
lysosomal-trafficking regulator

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007124.7 Reference GRCz11 Primary Assembly

    Range
    49866497..50062745 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_009307601.3 → XP_009305876.1  lysosomal-trafficking regulator isoform X2

    UniProtKB/TrEMBL
    A0A8M3AZH9
    Conserved Domains (5) summary
    smart01026
    Location:3163 → 3453
    Beach; Beige/BEACH domain
    COG2319
    Location:3567 → 3830
    WD40; WD40 repeat [General function prediction only]
    cd01201
    Location:3043 → 3148
    PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
    sd00039
    Location:3559 → 3596
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:3560 → 3809
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

  2. XM_017358861.2 → XP_017214350.1  lysosomal-trafficking regulator isoform X1

    UniProtKB/TrEMBL
    A0A8M6Z2E9

  3. XM_017358862.2 → XP_017214351.1  lysosomal-trafficking regulator isoform X3

    UniProtKB/TrEMBL
    A0A8M6Z3Z4

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394890.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    61731..245158 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021472744.1 → XP_021328419.1  lysosomal-trafficking regulator isoform X2

    UniProtKB/TrEMBL
    A0A8M9PU84
    Conserved Domains (4) summary
    smart01026
    Location:3163 → 3453
    Beach; Beige/BEACH domain
    cd01201
    Location:3043 → 3148
    PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
    sd00039
    Location:3559 → 3596
    7WD40; WD40 repeat [structural motif]
    cl25539
    Location:3560 → 3809
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
Nucleotide Protein Strain
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