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    rp1l1a rp1 like 1a [ Danio rerio (zebrafish) ]

    Gene ID: 101882236, updated on 2-Nov-2024

    Summary

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    Official Symbol
    rp1l1aprovided by ZNC
    Official Full Name
    rp1 like 1aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-120711-1
    See related
    Ensembl:ENSDARG00000089458 AllianceGenome:ZFIN:ZDB-GENE-120711-1
    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
    rp1l1
    Summary
    Acts upstream of or within convergent extension; nervous system development; and retina development in camera-type eye. Predicted to be located in cytoplasm; cytoskeleton; and photoreceptor outer segment. Predicted to be active in axoneme. Used to study eye disease. Human ortholog(s) of this gene implicated in occult macular dystrophy and retinitis pigmentosa 88. Orthologous to human RP1L1 (RP1 like 1). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See rp1l1a in Genome Data Viewer
    Location:
    chromosome: 17
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (5768834..5822116)
    105 previous assembly GRCz10 (GCF_000002035.5) 17 NC_007128.6 (5611740..5665025)

    Chromosome 17 - NC_007128.7Genomic Context describing neighboring genes Neighboring gene XK, Kell blood group complex subunit-related family, member 6a Neighboring gene si:dkey-100n19.2 Neighboring gene uncharacterized LOC103909007 Neighboring gene si:ch73-340m8.2 Neighboring gene glucokinase (hexokinase 4) regulator

    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. Progressive Photoreceptor Dysfunction and Age-Related Macular Degeneration-Like Features in rp1l1 Mutant Zebrafish. Noel NCL, et al. Cells, 2020 Sep 30. PMID 33007938, Free PMC Article
    2. Putative digenic inheritance of heterozygous RP1L1 and C2orf71 null mutations in syndromic retinal dystrophy. Liu YP, et al. Ophthalmic Genet, 2017 Mar-Apr. PMID 27029556, Free PMC Article
    3. Exome Sequence Analysis Suggests that Genetic Burden Contributes to Phenotypic Variability and Complex Neuropathy. Gonzaga-Jauregui C, et al. Cell Rep, 2015 Aug 18. PMID 26257172, Free PMC Article
    4. Transcriptomic analyses reveal novel genes with sexually dimorphic expression in the zebrafish gonad and brain. Sreenivasan R, et al. PLoS One, 2008 Mar 12. PMID 18335061, Free PMC Article
    5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    involved_in axoneme assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within cell projection organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within cerebellum development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within cerebellum development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within convergent extension IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within convergent extension IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within intracellular signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in photoreceptor cell development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within photoreceptor cell outer segment organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in retina development in camera-type eye IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within retina development in camera-type eye IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within retina development in camera-type eye IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within visual perception IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in axoneme IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cell projection IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cilium IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in photoreceptor outer segment IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    retinitis pigmentosa 1-like 1 protein
    Names
    retinitis pigmentosa 1-like 1
    retinitis pigmentosa 1-like 1a

    NCBI Reference Sequences (RefSeq)

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    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_007128.7 Reference GRCz11 Primary Assembly

      Range
      5768834..5822116
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005169809.4 → XP_005169866.1  retinitis pigmentosa 1-like 1 protein

      See identical proteins and their annotated locations for XP_005169866.1

      UniProtKB/TrEMBL
      A0A8M2BH38, E7F630
      Conserved Domains (2) summary
      cd01617
      Location:41 → 119
      DCX; Ubiquitin-like domain of DCX
      cl00155
      Location:164 → 239
      UBQ; Ubiquitin-like proteins

    2. XM_009292786.4 → XP_009291061.1  retinitis pigmentosa 1-like 1 protein

      See identical proteins and their annotated locations for XP_009291061.1

      UniProtKB/TrEMBL
      A0A8M2BH38, E7F630
      Conserved Domains (2) summary
      cd01617
      Location:41 → 119
      DCX; Ubiquitin-like domain of DCX
      cl00155
      Location:164 → 239
      UBQ; Ubiquitin-like proteins

    3. XM_005169808.5 → XP_005169865.1  retinitis pigmentosa 1-like 1 protein

      See identical proteins and their annotated locations for XP_005169865.1

      UniProtKB/TrEMBL
      A0A8M2BH38, E7F630
      Related
      ENSDARP00000127535.1, ENSDART00000153743.2
      Conserved Domains (2) summary
      cd01617
      Location:41 → 119
      DCX; Ubiquitin-like domain of DCX
      cl00155
      Location:164 → 239
      UBQ; Ubiquitin-like proteins
    Nucleotide Protein Strain
    Heading Accession and Version

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