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Aliases for LMO4 Gene

Aliases for LMO4 Gene

  • LIM Domain Only 4 2 3
  • LIM Domain Only Protein 4 3 4
  • Breast Tumor Autoantigen 3 4
  • LMO-4 3 4
  • LIM Domain Transcription Factor LMO4 3

External Ids for LMO4 Gene

Summaries for LMO4 Gene

Entrez Gene Summary for LMO4 Gene

  • This gene encodes a cysteine-rich protein that contains two LIM domains but lacks a DNA-binding homeodomain. The encoded protein may play a role as a transcriptional regulator or as an oncogene. [provided by RefSeq, Aug 2008]

GeneCards Summary for LMO4 Gene

LMO4 (LIM Domain Only 4) is a Protein Coding gene. Diseases associated with LMO4 include acute t cell leukemia and breast cancer. Among its related pathways are IL6-mediated signaling events. GO annotations related to this gene include sequence-specific DNA binding transcription factor activity and enhancer sequence-specific DNA binding. An important paralog of this gene is LMO2.

UniProtKB/Swiss-Prot for LMO4 Gene

  • Probable transcriptional factor.

Gene Wiki entry for LMO4 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LMO4 Gene

Genomics for LMO4 Gene

Genomic Location for LMO4 Gene

Start:
87,328,468 bp from pter
End:
87,348,923 bp from pter
Size:
20,456 bases
Orientation:
Plus strand

Genomic View for LMO4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for LMO4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LMO4 Gene

Regulatory Elements for LMO4 Gene

Proteins for LMO4 Gene

  • Protein details for LMO4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P61968-LMO4_HUMAN
    Recommended name:
    LIM domain transcription factor LMO4
    Protein Accession:
    P61968
    Secondary Accessions:
    • D3DT23
    • O00158
    • O88894

    Protein attributes for LMO4 Gene

    Size:
    165 amino acids
    Molecular mass:
    17994 Da
    Quaternary structure:
    • Interacts strongly with LDBS. Interacts with DEAF1; LMO4 blocks export from nucleus. Interacts with CLIM1 and CLIM2. Interacts (via the LIM zinc-binding domain 1) with RBBP8. Interacts with BRCA1 (via the BRCT domains); the interaction represses BRCA1 transcriptional activity (By similarity).

    Three dimensional structures from OCA and Proteopedia for LMO4 Gene

neXtProt entry for LMO4 Gene

Proteomics data for LMO4 Gene at MOPED

Post-translational modifications for LMO4 Gene

No Post-translational modifications

Other Protein References for LMO4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LMO4 Gene

Domains for LMO4 Gene

Protein Domains for LMO4 Gene

InterPro:
ProtoNet:

UniProtKB/Swiss-Prot:

LMO4_HUMAN
Domain:
  • Contains 2 LIM zinc-binding domains.:
    • P61968
genes like me logo Genes that share domains with LMO4: view

No data available for Gene Families for LMO4 Gene

Function for LMO4 Gene

Molecular function for LMO4 Gene

UniProtKB/Swiss-Prot Function: Probable transcriptional factor.

Gene Ontology (GO) - Molecular Function for LMO4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001158 enhancer sequence-specific DNA binding IEA --
GO:0003700 sequence-specific DNA binding transcription factor activity TAS 10209267
GO:0005515 protein binding IPI 15231748
GO:0008134 transcription factor binding ISS --
GO:0008270 zinc ion binding IEA --
genes like me logo Genes that share ontologies with LMO4: view
genes like me logo Genes that share phenotypes with LMO4: view

Animal Models for LMO4 Gene

MGI Knock Outs for LMO4:

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targeting and HOMER Transcription for LMO4 Gene

Localization for LMO4 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LMO4 Gene COMPARTMENTS Subcellular localization image for LMO4 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for LMO4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005667 transcription factor complex ISS --
genes like me logo Genes that share ontologies with LMO4: view

Pathways for LMO4 Gene

SuperPathways for LMO4 Gene

genes like me logo Genes that share pathways with LMO4: view

Pathways by source for LMO4 Gene

1 BioSystems pathway for LMO4 Gene

Gene Ontology (GO) - Biological Process for LMO4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001843 neural tube closure ISS --
GO:0003281 ventricular septum development IEA --
GO:0006366 transcription from RNA polymerase II promoter ISS --
GO:0021514 ventral spinal cord interneuron differentiation IEA --
GO:0021522 spinal cord motor neuron differentiation IEA --
genes like me logo Genes that share ontologies with LMO4: view

Transcripts for LMO4 Gene

Unigene Clusters for LMO4 Gene

LIM domain only 4:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for LMO4 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7a · 7b · 7c
SP1: - - - -
SP2: -
SP3: - - -
SP4: - -
SP5:

Relevant External Links for LMO4 Gene

GeneLoc Exon Structure for
LMO4
ECgene alternative splicing isoforms for
LMO4

Expression for LMO4 Gene

mRNA expression in normal human tissues for LMO4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LMO4 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (5.2), Brain - Anterior cingulate cortex (BA24) (4.6), and Brain - Cortex (4.3).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for LMO4 Gene

SOURCE GeneReport for Unigene cluster for LMO4 Gene Hs.436792

genes like me logo Genes that share expressions with LMO4: view

Orthologs for LMO4 Gene

This gene was present in the common ancestor of animals.

Orthologs for LMO4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LMO4 36
  • 99.8 (n)
  • 100 (a)
LMO4 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia LMO4 36
  • 97.17 (n)
  • 100 (a)
LMO4 37
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LMO4 36
  • 97.58 (n)
  • 100 (a)
LMO4 37
  • 100 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lmo4 36
  • 95.76 (n)
  • 100 (a)
Lmo4 16
Lmo4 37
  • 100 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LMO4 37
  • 99 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia LMO4 37
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lmo4 36
  • 96.16 (n)
  • 100 (a)
chicken
(Gallus gallus)
Aves LMO4 36
  • 92.53 (n)
  • 98.79 (a)
LMO4 37
  • 90 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LMO4 37
  • 99 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.24588 36
tropical clawed frog
(Silurana tropicalis)
Amphibia lmo4.1 36
  • 86.67 (n)
  • 98.18 (a)
Str.145 36
zebrafish
(Danio rerio)
Actinopterygii Dr.19236 36
lmo4b 36
  • 81.41 (n)
  • 95.76 (a)
lmo4b 37
  • 96 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG5708 36
  • 56.94 (n)
  • 55.83 (a)
CG5708 37
  • 32 (a)
OneToOne
CG5708 38
  • 50 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 37
  • 45 (a)
OneToOne
Species with no ortholog for LMO4:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for LMO4 Gene

ENSEMBL:
Gene Tree for LMO4 (if available)
TreeFam:
Gene Tree for LMO4 (if available)

Paralogs for LMO4 Gene

Paralogs for LMO4 Gene

Selected SIMAP similar genes for LMO4 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with LMO4: view

Variants for LMO4 Gene

Sequence variations from dbSNP and Humsavar for LMO4 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs20570 -- 87,340,139(+) AGACC(A/T)ACAGC synonymous-codon, reference
rs1065416 -- 87,333,554(+) TATGT(G/T)TACCC intron-variant
rs1922986 -- 87,331,560(-) ccggg(C/G)cccgg intron-variant, upstream-variant-2KB
rs1950507 -- 87,330,965(+) GAATT(C/T)TTTTT intron-variant, upstream-variant-2KB
rs3211265 -- 87,345,398(+) aaaaa(A/G)aatga utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for LMO4 Gene

Variant ID Type Subtype PubMed ID
esv24748 CNV Gain 19812545

Relevant External Links for LMO4 Gene

HapMap Linkage Disequilibrium report
LMO4

Disorders for LMO4 Gene

(1) University of Copenhagen DISEASES for LMO4 Gene

(6) Novoseek inferred disease relationships for LMO4 Gene

Disease -log(P) Hits PubMed IDs
leukemia t-cell 59.3 1
t-all 50.2 1
breast carcinoma 38.8 2
breast cancer 31.5 14
tumors 7.68 8

Relevant External Links for LMO4

Genetic Association Database (GAD)
LMO4
Human Genome Epidemiology (HuGE) Navigator
LMO4
genes like me logo Genes that share disorders with LMO4: view

No data available for UniProtKB/Swiss-Prot for LMO4 Gene

Publications for LMO4 Gene

  1. Molecular cloning of LMO4, a new human LIM domain gene. (PMID: 10209267) Racevskis J. … Ruan H. (Biochim. Biophys. Acta 1999) 3 4 23
  2. Case-control study of six genes asymmetrically expressed in the two cerebral hemispheres: association of BAIAP2 with attention-deficit/hyperactivity disorder. (PMID: 19733838) RibasAcs M. … Cormand B. (Biol. Psychiatry 2009) 3 23 49
  3. Stabilization of a binary protein complex by intein-mediated cyclization. (PMID: 17001033) Jeffries C.M. … Matthews J.M. (Protein Sci. 2006) 3 23
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  5. LIM only 4 is overexpressed in late stage pancreas cancer. (PMID: 19099607) Yu J. … Tanaka M. (Mol. Cancer 2008) 3 23

Products for LMO4 Gene

Sources for LMO4 Gene

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