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

Gene ID: 30576, updated on 2-Nov-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, Nov 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 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
  
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
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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