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    lrwd1 leucine-rich repeats and WD repeat domain containing 1 [ Danio rerio (zebrafish) ]

    Gene ID: 327124, updated on 18-Sep-2024

    Summary

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    Official Symbol
    lrwd1provided by ZNC
    Official Full Name
    leucine-rich repeats and WD repeat domain containing 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-5335
    See related
    Ensembl:ENSDARG00000035147 AllianceGenome:ZFIN:ZDB-GENE-030131-5335
    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
    ORCA; wu:fb78b03; wu:ft31b04; si:dkey-261j4.9
    Summary
    Predicted to enable chromatin binding activity; methyl-CpG binding activity; and methylated histone binding activity. Predicted to be involved in chromatin organization and establishment of protein localization to chromatin. Predicted to act upstream of or within DNA replication. Predicted to be located in chromosomal region and nucleus. Predicted to be part of nuclear origin of replication recognition complex. Is expressed in blastomere. Orthologous to human LRWD1 (leucine rich repeats and WD repeat domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See lrwd1 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (61475336..61504876)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (60790632..60820155)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene RNA polymerase II subunit J Neighboring gene alkB homolog 4, lysine demthylase Neighboring gene branched chain ketoacid dehydrogenase kinase Neighboring gene ORAI calcium release-activated calcium modulator 2

    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. Uniform gene expression in embryos is achieved by temporal averaging of transcription noise. Stapel LC, et al. Genes Dev, 2017 Aug 15. PMID 28903980, Free PMC Article
    2. Cadm4 restricts the production of cardiac outflow tract progenitor cells. Zeng XX, et al. Cell Rep, 2014 May 22. PMID 24813897, Free PMC Article
    3. The guanine nucleotide exchange factor Net1 facilitates the specification of dorsal cell fates in zebrafish embryos by promoting maternal β-catenin activation. Wei S, et al. Cell Res, 2017 Feb. PMID 27910850, Free PMC Article
    4. Hematopoietic gene expression profile in zebrafish kidney marrow. Song HD, et al. Proc Natl Acad Sci U S A, 2004 Nov 16. PMID 15520368, Free PMC Article
    5. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables chromatin binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables methyl-CpG binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables methylated histone binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA replication IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin organization ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in establishment of protein localization to chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in establishment of protein localization to chromatin ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in centrosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in chromosome, centromeric region IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in chromosome, telomeric region IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in chromosome, telomeric region ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in kinetochore IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in kinetochore ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of nuclear origin of replication recognition complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of nuclear origin of replication recognition complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in pericentric heterochromatin ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat and WD repeat-containing protein 1
    Names
    ORC-associated protein
    origin recognition complex-associated protein

    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_001305662.1 → NP_001292591.1  leucine-rich repeat and WD repeat-containing protein 1

      See identical proteins and their annotated locations for NP_001292591.1

      Status: VALIDATED

      Source sequence(s)
      AL935280
      UniProtKB/Swiss-Prot
      B0R160, Q503J1
      UniProtKB/TrEMBL
      A0A8M9PX45
      Related
      ENSDARP00000050905.5, ENSDART00000050906.6
      Conserved Domains (4) summary
      COG2319
      Location:413 → 762
      WD40; WD40 repeat [General function prediction only]
      sd00031
      Location:23 → 48
      LRR_1; leucine-rich repeat [structural motif]
      sd00039
      Location:504 → 547
      7WD40; WD40 repeat [structural motif]
      cl42388
      Location:43 → 130
      PPP1R42; protein phosphatase 1 regulatory subunit 42

    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_007116.7 Reference GRCz11 Primary Assembly

      Range
      61475336..61504876
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017356041.3 → XP_017211530.1  leucine-rich repeat and WD repeat-containing protein 1 isoform X2

      UniProtKB/Swiss-Prot
      B0R160, Q503J1
      UniProtKB/TrEMBL
      A0A8M9PX45
      Conserved Domains (4) summary
      COG2319
      Location:413 → 762
      WD40; WD40 repeat [General function prediction only]
      sd00031
      Location:23 → 48
      LRR_1; leucine-rich repeat [structural motif]
      sd00039
      Location:504 → 547
      7WD40; WD40 repeat [structural motif]
      cl42388
      Location:43 → 130
      PPP1R42; protein phosphatase 1 regulatory subunit 42

    2. XM_678221.9 → XP_683313.4  leucine-rich repeat and WD repeat-containing protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A0R4IKV7, A0A8N7T6Y2
      Related
      ENSDARP00000134872.1, ENSDART00000163444.2
      Conserved Domains (5) summary
      COG2319
      Location:418 → 767
      WD40; WD40 repeat [General function prediction only]
      sd00033
      Location:28 → 53
      LRR_RI; leucine-rich repeat [structural motif]
      pfam12799
      Location:52 → 93
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:53 → 107
      LRR_8; Leucine rich repeat
      sd00039
      Location:509 → 552
      7WD40; WD40 repeat [structural motif]

    3. XM_021476013.2 → XP_021331688.1  leucine-rich repeat and WD repeat-containing protein 1 isoform X2

      UniProtKB/Swiss-Prot
      B0R160, Q503J1
      UniProtKB/TrEMBL
      A0A8M9PX45
      Conserved Domains (4) summary
      COG2319
      Location:413 → 762
      WD40; WD40 repeat [General function prediction only]
      sd00031
      Location:23 → 48
      LRR_1; leucine-rich repeat [structural motif]
      sd00039
      Location:504 → 547
      7WD40; WD40 repeat [structural motif]
      cl42388
      Location:43 → 130
      PPP1R42; protein phosphatase 1 regulatory subunit 42
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    B0R160.1 GenPept UniProtKB/Swiss-Prot:B0R160

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