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    ldb1b LIM-domain binding 1b [ Danio rerio (zebrafish) ]

    Gene ID: 30576, updated on 9-Dec-2024

    Summary

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    Official Symbol
    ldb1bprovided by ZNC
    Official Full Name
    LIM-domain binding 1bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-990415-135
    See related
    Ensembl:ENSDARG00000103158 AllianceGenome:ZFIN:ZDB-GENE-990415-135
    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
    ldb1
    Summary
    Predicted to enable LIM domain binding activity. Predicted to be located in nucleus. Is expressed in blood island; fin bud; lateral mesoderm; neural tube; and tail bud. [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See ldb1b in Genome Data Viewer
    Location:
    chromosome: 11
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 11 NC_007122.7 (44953250..44999951, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 11 NC_007122.6 (44002589..44021457)

    Chromosome 11 - NC_007122.7Genomic Context describing neighboring genes Neighboring gene cilia and flagella associated protein 410 Neighboring gene origin recognition complex, subunit 2 Neighboring gene peroxisome proliferator-activated receptor gamma coactivator-related protein 1 Neighboring gene si:dkey-93h22.8

    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. Centrosome movements in vivo correlate with specific neurite formation downstream of LIM homeodomain transcription factor activity. Andersen EF, et al. Development, 2012 Oct. PMID 22899847, Free PMC Article
    2. Spliced isoforms of LIM-domain-binding protein (CLIM/NLI/Ldb) lacking the LIM-interaction domain. Tran YH, et al. J Biochem, 2006 Jul. PMID 16815859
    3. Novel binding partners of Ldb1 are required for haematopoietic development. Meier N, et al. Development, 2006 Dec. PMID 17108004
    4. The 'definitive' (and 'primitive') guide to zebrafish hematopoiesis. Davidson AJ, et al. Oncogene, 2004 Sep 20. PMID 15378083
    5. 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

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC114025, MGC123160

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables LIM domain binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coregulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nervous system development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of transcription regulator complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    LIM domain-binding protein 1b
    Names
    LIM-domain binding factor 1
    LIM-domain binding factor 1b

    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_001362321.1 → NP_001349250.1  LIM domain-binding protein 1b isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      LO017733
      UniProtKB/TrEMBL
      Q2YDQ6
      Related
      ENSDARP00000132230.2, ENSDART00000167759.2
      Conserved Domains (1) summary
      pfam01803
      Location:71 → 272
      LIM_bind; LIM-domain binding protein

    2. NM_131313.3 → NP_571388.3  LIM domain-binding protein 1b isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1.
      Source sequence(s)
      LO017733
      UniProtKB/TrEMBL
      O73712, Q2YDQ6
      Related
      ENSDARP00000145498.1, ENSDART00000190972.1
      Conserved Domains (1) summary
      pfam01803
      Location:34 → 235
      LIM_bind; LIM-domain binding protein

    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_007122.7 Reference GRCz11 Primary Assembly

      Range
      44953250..44999951 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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