U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

lmo4a LIM domain only 4a [ Danio rerio (zebrafish) ]

Gene ID: 114412, updated on 9-Dec-2024

Summary

Go to the top of the page Help
Official Symbol
lmo4aprovided by ZNC
Official Full Name
LIM domain only 4aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-010702-1
See related
Ensembl:ENSDARG00000013853 AllianceGenome:ZFIN:ZDB-GENE-010702-1
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
NH13; lmo4; id:ibd2576; id:ibd5151
Summary
Predicted to enable metal ion binding activity. Acts upstream of or within embryonic camera-type eye development and forebrain development. Is expressed in several structures, including brain; cardiovascular system; germ ring; mesoderm; and neural keel. Orthologous to human LMO4 (LIM domain only 4). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs
all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See lmo4a in Genome Data Viewer
Location:
chromosome: 5
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (32924669..32946255)
105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (32324500..32346102)

Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene polymerase (DNA directed), epsilon 3 (p17 subunit) Neighboring gene cellular communication network factor 1, like 1 Neighboring gene zgc:55461 Neighboring gene neuropeptide FF receptor 2 Neighboring gene GLI pathogenesis-related 2

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. lmo4a Contributes to Zebrafish Inner Ear and Vestibular Development via Regulation of the Bmp Pathway. Sun L, et al. Genes (Basel), 2023 Jun 28. PMID 37510276, Free PMC Article
  2. An optimised pipeline for parallel image-based quantification of gene expression and genotyping after in situ hybridisation. Dobrzycki T, et al. Biol Open, 2018 Apr 9. PMID 29535102, Free PMC Article
  3. Dynamic expression and regulation by Fgf8 and Pou2 of the zebrafish LIM-only gene, lmo4. Lane ME, et al. Mech Dev, 2002 Dec. PMID 14516683
  4. Gene expression changes in aging zebrafish (Danio rerio) brains are sexually dimorphic. Arslan-Ergul A, et al. BMC Neurosci, 2014 Feb 18. PMID 24548546, Free PMC Article
  5. A zebrafish LMO4 ortholog limits the size of the forebrain and eyes through negative regulation of six3b and rx3. McCollum CW, et al. Dev Biol, 2007 Sep 15. PMID 17692837, Free PMC Article

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. lmo4a Contributes to Zebrafish Inner Ear and Vestibular Development via Regulation of the Bmp Pathway.
    Title: lmo4a Contributes to Zebrafish Inner Ear and Vestibular Development via Regulation of the Bmp Pathway.
Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

Homology

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 embryonic camera-type eye development IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within embryonic camera-type eye development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within forebrain development IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within forebrain development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
  

General protein information

Go to the top of the page Help
Preferred Names
LIM domain transcription factor LMO4a
Names
LIM domain only 4

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_177984.1 → NP_817093.1  LIM domain transcription factor LMO4a

    See identical proteins and their annotated locations for NP_817093.1

    Status: PROVISIONAL

    Source sequence(s)
    BC045835
    UniProtKB/TrEMBL
    A0A2R8Q433, F6PBS1, Q8QG63
    Related
    ENSDARP00000079654.4, ENSDART00000085219.5
    Conserved Domains (2) summary
    cd09386
    Location:24 → 78
    LIM1_LMO4; The first LIM domain of LMO4 (LIM domain only protein 4)
    cd09387
    Location:88 → 142
    LIM2_LMO4; The second LIM domain of LMO4 (LIM domain only protein 4)

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
    32924669..32946255
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_009301446.4 → XP_009299721.1  LIM domain transcription factor LMO4a isoform X2

    UniProtKB/TrEMBL
    A0A2R8RLI6, A0A8M3ASE8
    Related
    ENSDARP00000147813.1, ENSDART00000192397.1
    Conserved Domains (2) summary
    cd09386
    Location:24 → 78
    LIM1_LMO4; The first LIM domain of LMO4 (LIM domain only protein 4)
    cd09387
    Location:88 → 142
    LIM2_LMO4; The second LIM domain of LMO4 (LIM domain only protein 4)

  2. XM_068221084.1 → XP_068077185.1  LIM domain transcription factor LMO4a isoform X1

    UniProtKB/TrEMBL
    A0A2R8Q433, F6PBS1, Q8QG63

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394587.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    24454..46040
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCz11 ALT_DRER_TU_2

Genomic

  1. NW_018395240.1 Reference GRCz11 ALT_DRER_TU_2

    Range
    188048..209882
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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