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rtn1b reticulon 1b [ Danio rerio (zebrafish) ]

Gene ID: 327065, updated on 27-Mar-2024

Summary

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Official Symbol
rtn1bprovided by ZNC
Official Full Name
reticulon 1bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-030710-3
See related
Ensembl:ENSDARG00000021143 AllianceGenome:ZFIN:ZDB-GENE-030710-3
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
rtn1; rtn1l; wu:fa21b09; wu:fj35h01
Summary
Predicted to be located in endoplasmic reticulum membrane. Predicted to be integral component of membrane. Is expressed in central nervous system; eye; gill; heart; and muscle. Orthologous to human RTN1 (reticulon 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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See rtn1b in Genome Data Viewer
Location:
chromosome: 20
Exon count:
10
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 20 NC_007131.7 (20637760..20695953)
105 previous assembly GRCz10 (GCF_000002035.5) 20 NC_007131.6 (20737899..20796280)

Chromosome 20 - NC_007131.7Genomic Context describing neighboring genes Neighboring gene si:ch211-253p18.2 Neighboring gene protein phosphatase, Mg2+/Mn2+ dependent, 1Ab Neighboring gene RD3 like Neighboring gene ATP synthase membrane subunit j Neighboring gene protein phosphatase 1, regulatory subunit 13Bb

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. Targeting neural circuitry in zebrafish using GAL4 enhancer trapping. Scott EK, et al. Nat Methods, 2007 Apr. PMID 17369834
  2. ERK1 and ERK2 MAPK are key regulators of distinct gene sets in zebrafish embryogenesis. Krens SF, et al. BMC Genomics, 2008 Apr 28. PMID 18442396, Free PMC Article
  3. Analysis of the reticulon gene family demonstrates the absence of the neurite growth inhibitor Nogo-A in fish. Diekmann H, et al. Mol Biol Evol, 2005 Aug. PMID 15858203
  4. A reticular rhapsody: phylogenic evolution and nomenclature of the RTN/Nogo gene family. Oertle T, et al. FASEB J, 2003 Jul. PMID 12832288
  5. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Process Evidence Code Pubs
involved_in brain development IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in endoplasmic reticulum tubular network formation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in neuron differentiation IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  
is_active_in endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in neuron projection IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in postsynaptic density IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
reticulon-1; reticulon-1b
Names
reticulon 1, like

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_001029948.2 → NP_001025119.1  reticulon-1b isoform 1

    See identical proteins and their annotated locations for NP_001025119.1

    Status: VALIDATED

    Source sequence(s)
    BX088722
    UniProtKB/TrEMBL
    A8E4S3, Q5TZI1
    Related
    ENSDARP00000009989.9, ENSDART00000027758.11
    Conserved Domains (1) summary
    pfam02453
    Location:27 → 189
    Reticulon; Reticulon

  2. NM_001328270.1 → NP_001315199.1  reticulon-1b isoform 2

    Status: VALIDATED

    Source sequence(s)
    BX088722
    UniProtKB/TrEMBL
    A0A8M1P9Q6, Q4G5W6
    Related
    ENSDARP00000073534.4, ENSDART00000079079.6
    Conserved Domains (1) summary
    pfam02453
    Location:77 → 239
    Reticulon; Reticulon

  3. NM_001328271.1 → NP_001315200.1  reticulon-1b isoform 3

    Status: VALIDATED

    Source sequence(s)
    BX088722
    UniProtKB/TrEMBL
    A0A8M1P3N9, F1R540
    Related
    ENSDARP00000060202.4, ENSDART00000060203.6
    Conserved Domains (1) summary
    pfam02453
    Location:582 → 744
    Reticulon; Reticulon

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_007131.7 Reference GRCz11 Primary Assembly

    Range
    20637760..20695953
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005160490.4 → XP_005160547.1  reticulon-1 isoform X1

    UniProtKB/TrEMBL
    A0A8M2B7D0
    Conserved Domains (2) summary
    PLN03131
    Location:39 → 410
    PLN03131; hypothetical protein; Provisional
    pfam02453
    Location:581 → 743
    Reticulon; Reticulon
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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