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nle1 notchless homolog 1 (Drosophila) [ Danio rerio (zebrafish) ]

Gene ID: 553606, updated on 28-Oct-2024

Summary

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Official Symbol
nle1provided by ZNC
Official Full Name
notchless homolog 1 (Drosophila)provided by ZNC
Primary source
ZFIN:ZDB-GENE-050522-321
See related
Ensembl:ENSDARG00000057105 AllianceGenome:ZFIN:ZDB-GENE-050522-321
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
fc12b09; fc45f01; wu:fc12b09; wu:fc45f01; zgc:110281
Summary
Predicted to be involved in regulation of Notch signaling pathway. Predicted to act upstream of or within Notch signaling pathway. Predicted to be located in nucleus. Predicted to be active in nucleolus. Is expressed in alar plate midbrain region; nervous system; optic vesicle; and pharyngeal arch. Orthologous to human NLE1 (notchless homolog 1). [provided by Alliance of Genome Resources, Oct 2024]
Orthologs
human mouse all
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Genomic context

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See nle1 in Genome Data Viewer
Location:
chromosome: 10
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (23070752..23099869, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (23101300..23130417, complement)

Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene si:dkey-175g6.2 Neighboring gene solute carrier family 25 member 1a Neighboring gene listerin E3 ubiquitin protein ligase 1 Neighboring gene cell adhesion molecule 2a Neighboring gene si:ch73-122g19.1

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 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. Zebrafish midbrain slow-amplifying progenitors exhibit high levels of transcripts for nucleotide and ribosome biogenesis. Recher G, et al. Development, 2013 Dec. PMID 24198278
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. 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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Markers

Homology

Clone Names

  • MGC110281

Gene Ontology Provided by ZFIN

Process Evidence Code Pubs
acts_upstream_of_or_within Notch signaling pathway IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of Notch signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
notchless protein homolog 1

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_001328516.1 → NP_001315445.1  notchless protein homolog 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    CR926463
    UniProtKB/TrEMBL
    A0A8M1PA49, F1QDT3
    Related
    ENSDARP00000074155.4, ENSDART00000079703.6
    Conserved Domains (5) summary
    smart00320
    Location:436 → 474
    WD40; WD40 repeats
    COG2319
    Location:98 → 474
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:97 → 433
    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 ...
    pfam08154
    Location:8 → 68
    NLE; NLE (NUC135) domain
    sd00039
    Location:150 → 188
    7WD40; WD40 repeat [structural motif]

  2. NM_001328517.1 → NP_001315446.1  notchless protein homolog 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    CR926463
    UniProtKB/TrEMBL
    A0A8M1PA49, F1QDT3
    Related
    ENSDARP00000141676.1, ENSDART00000162444.2
    Conserved Domains (5) summary
    smart00320
    Location:436 → 474
    WD40; WD40 repeats
    COG2319
    Location:98 → 474
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:97 → 433
    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 ...
    pfam08154
    Location:8 → 68
    NLE; NLE (NUC135) domain
    sd00039
    Location:150 → 188
    7WD40; WD40 repeat [structural motif]

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

  1. NC_007121.7 Reference GRCz11 Primary Assembly

    Range
    23070752..23099869 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001020582.1: Suppressed sequence

    Description
    NM_001020582.1: This RefSeq was removed because currently there is insufficient support for the transcript.
Nucleotide Protein Strain
Heading Accession and Version

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