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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

Gene LinkOut

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