U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

ldb3a LIM domain binding 3a [ Danio rerio (zebrafish) ]

Gene ID: 794339, updated on 4-Jan-2025

Summary

Go to the top of the page Help
Official Symbol
ldb3aprovided by ZNC
Official Full Name
LIM domain binding 3aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-040121-6
See related
Ensembl:ENSDARG00000056322 AllianceGenome:ZFIN:ZDB-GENE-040121-6
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
ZASP; ldb3; cypher; zehn1639; hm:zehn1639
Summary
Predicted to enable metal ion binding activity. Acts upstream of or within several processes, including locomotory behavior; skeletal muscle tissue development; and somitogenesis. Is expressed in several structures, including adaxial cell; intestine; musculature system; pericardial region; and sensory system. Human ortholog(s) of this gene implicated in dilated cardiomyopathy; dilated cardiomyopathy 1C; distal myopathy; and myofibrillar myopathy 4. Orthologous to human LDB3 (LIM domain binding 3). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See ldb3a in Genome Data Viewer
Location:
chromosome: 13
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 13 NC_007124.7 (22476793..22550416)
105 previous assembly GRCz10 (GCF_000002035.5) 13 NC_007124.6 (22350040..22422243)

Chromosome 13 - NC_007124.7Genomic Context describing neighboring genes Neighboring gene ubiquitin specific peptidase 54a Neighboring gene opsin 4a (melanopsin) Neighboring gene bone morphogenetic protein receptor, type IAa Neighboring gene multimerin 2a Neighboring gene synuclein, gamma a

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Rapamycin attenuates pathological hypertrophy caused by an absence of trabecular formation. Fleming ND, et al. Sci Rep, 2018 Jun 5. PMID 29872120, Free PMC Article
  2. Zebrafish cypher is important for somite formation and heart development. van der Meer DL, et al. Dev Biol, 2006 Nov 15. PMID 16982050
  3. Talin1 is required for cardiac Z-disk stabilization and endothelial integrity in zebrafish. Wu Q, et al. FASEB J, 2015 Dec. PMID 26310270, Free PMC Article
  4. Characterization of the Enigma family in zebrafish. Ott EB, et al. Dev Dyn, 2007 Nov. PMID 17937393
  5. Endothelial Brg1 fine-tunes Notch signaling during zebrafish heart regeneration. Xiao C, et al. NPJ Regen Med, 2023 Apr 7. PMID 37029137, Free PMC Article

See all (21) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

Go to the top of the page Help
Products Interactant Other Gene Complex Source Pubs Description

General gene information

Go to the top of the page Help

Markers

Homology

Clone Names

  • MGC56098

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within heart development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within locomotory behavior IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within skeletal muscle tissue development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within somitogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 

General protein information

Go to the top of the page Help
Preferred Names
LIM domain-binding protein 3a
Names
LIM-domain binding factor 3, like
LIM-domain binding factor 3a

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001430876.1 → NP_001417805.1  LIM domain-binding protein 3a isoform 2

    Status: VALIDATED

    Source sequence(s)
    CT573135

  2. NM_201505.2 → NP_958913.2  LIM domain-binding protein 3a isoform 1

    Status: VALIDATED

    Source sequence(s)
    CT573135
    UniProtKB/TrEMBL
    Q7ZVD3
    Related
    ENSDARP00000073201.4, ENSDART00000078740.6

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_007124.7 Reference GRCz11 Primary Assembly

    Range
    22476793..22550416
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068212948.1 → XP_068069049.1  LIM domain-binding protein 3a isoform X1

    Related
    ENSDARP00000073220.3, ENSDART00000078759.4

  2. XM_068212947.1 → XP_068069048.1  LIM domain-binding protein 3a isoform X1

  3. XM_068212952.1 → XP_068069053.1  LIM domain-binding protein 3a isoform X3

  4. XM_068212955.1 → XP_068069056.1  LIM domain-binding protein 3a isoform X5

    UniProtKB/TrEMBL
    Q7ZVD3
    Related
    ENSDARP00000116588.1, ENSDART00000137220.3

  5. XM_068212957.1 → XP_068069058.1  LIM domain-binding protein 3a isoform X6

    UniProtKB/TrEMBL
    Q7ZVD3
    Related
    ENSDARP00000119395.1, ENSDART00000133065.3

  6. XM_068212946.1 → XP_068069047.1  LIM domain-binding protein 3a isoform X1

  7. XM_068212945.1 → XP_068069046.1  LIM domain-binding protein 3a isoform X1

    Related
    ENSDARP00000115285.1, ENSDART00000131870.3

  8. XM_068212949.1 → XP_068069050.1  LIM domain-binding protein 3a isoform X2

    Related
    ENSDARP00000073218.3, ENSDART00000078757.5

  9. XM_068212950.1 → XP_068069051.1  LIM domain-binding protein 3a isoform X3

    Related
    ENSDARP00000109131.2, ENSDART00000130424.4

  10. XM_068212953.1 → XP_068069054.1  LIM domain-binding protein 3a isoform X4

    Related
    ENSDARP00000073208.4, ENSDART00000078747.7

  11. XM_068212954.1 → XP_068069055.1  LIM domain-binding protein 3a isoform X5

    UniProtKB/TrEMBL
    Q7ZVD3
    Related
    ENSDARP00000157437.1, ENSDART00000192972.1

  12. XM_021480673.2 → XP_021336348.2  LIM domain-binding protein 3a isoform X6

    UniProtKB/TrEMBL
    Q7ZVD3
    Related
    ENSDARP00000150455.1, ENSDART00000188182.1

  13. XM_068212956.1 → XP_068069057.1  LIM domain-binding protein 3a isoform X6

    UniProtKB/TrEMBL
    Q7ZVD3
    Related
    ENSDARP00000044718.5, ENSDART00000044719.7

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394883.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    365273..445930
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases
Research Materials
Tools