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Aliases for LMO1 Gene

Aliases for LMO1 Gene

  • LIM Domain Only 1 2 3 5
  • T-Cell Translocation Protein 1 3 4
  • Cysteine-Rich Protein TTG-1 3 4
  • LIM Domain Only Protein 1 3 4
  • RBTN1 3 4
  • LMO-1 3 4
  • RHOM1 3 4
  • TTG1 3 4
  • LIM Domain Only 1 (Rhombotin 1) 3
  • T-Cell Translocation Gene 1 3
  • Rhombotin 1 2
  • Rhombotin-1 3

External Ids for LMO1 Gene

Previous HGNC Symbols for LMO1 Gene

  • RBTN1

Previous GeneCards Identifiers for LMO1 Gene

  • GC11M009030
  • GC11M008706
  • GC11M008204
  • GC11M008210
  • GC11M008202
  • GC11M007915

Summaries for LMO1 Gene

Entrez Gene Summary for LMO1 Gene

  • This locus encodes a transcriptional regulator that contains two cysteine-rich LIM domains but lacks a DNA-binding domain. LIM domains may play a role in protein interactions; thus the encoded protein may regulate transcription by competitively binding to specific DNA-binding transcription factors. Alterations at this locus have been associated with acute lymphoblastic T-cell leukemia. Chromosomal rearrangements have been observed between this locus and at least two loci, the delta subunit of the T-cell antigen receptor gene and the LIM domain binding 1 gene. Alternatively spliced transcript variants have been described. [provided by RefSeq, Jul 2012]

GeneCards Summary for LMO1 Gene

LMO1 (LIM Domain Only 1) is a Protein Coding gene. Diseases associated with LMO1 include Exencephaly and Cd3epsilon Deficiency. An important paralog of this gene is LMO3.

UniProtKB/Swiss-Prot for LMO1 Gene

  • May be involved in gene regulation within neural lineage cells potentially by direct DNA binding or by binding to other transcription factors.

Gene Wiki entry for LMO1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LMO1 Gene

Genomics for LMO1 Gene

Regulatory Elements for LMO1 Gene

Enhancers for LMO1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH11G008231 1.2 Ensembl ENCODE dbSUPER 5.5 +35.2 35227 3.4 CTCF JUN ZIC2 ZNF664 GLIS2 ZBTB48 POLR2A SMC3 FOS ZNF600 LMO1 LOC105376536 GC11P008258
GH11G008267 0.7 dbSUPER 7.7 +0.1 127 2.6 ZNF777 SUZ12 ZSCAN4 CHD1 REST HIC1 ZFHX2 POLR2A SMARCA4 ZNF341 LMO1 GC11P008268 GC11P008258
GH11G008258 0.9 ENCODE dbSUPER 5 +9.9 9942 1.4 NFYA JUN MAX CEBPB CEBPG EP300 OSR2 JUND SMARCA4 NFYB LMO1 GC11P008258 LOC105376536
GH11G008283 1.6 ENCODE 0.4 -15.1 -15116 0.8 CBX3 POLR2A SMARCA4 PBX2 TRIM28 EZH2 GC11M008295 LMO1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LMO1 on UCSC Golden Path with GeneCards custom track

Genomic Location for LMO1 Gene

Chromosome:
11
Start:
8,224,304 bp from pter
End:
8,268,716 bp from pter
Size:
44,413 bases
Orientation:
Minus strand

Genomic View for LMO1 Gene

Genes around LMO1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LMO1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LMO1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LMO1 Gene

Proteins for LMO1 Gene

  • Protein details for LMO1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P25800-RBTN1_HUMAN
    Recommended name:
    Rhombotin-1
    Protein Accession:
    P25800
    Secondary Accessions:
    • E9PSF5
    • Q4VBC5
    • Q8IXR0

    Protein attributes for LMO1 Gene

    Size:
    156 amino acids
    Molecular mass:
    17828 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAH39512.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for LMO1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LMO1 Gene

Post-translational modifications for LMO1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for LMO1 Gene

No data available for DME Specific Peptides for LMO1 Gene

Domains & Families for LMO1 Gene

Gene Families for LMO1 Gene

Protein Domains for LMO1 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for LMO1 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LMO1: view

No data available for UniProtKB/Swiss-Prot for LMO1 Gene

Function for LMO1 Gene

Molecular function for LMO1 Gene

GENATLAS Biochemistry:
LIM domain only 1,rhombotin 1,expressed in rhombomeres
UniProtKB/Swiss-Prot Function:
May be involved in gene regulation within neural lineage cells potentially by direct DNA binding or by binding to other transcription factors.

Gene Ontology (GO) - Molecular Function for LMO1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21516116
GO:0008270 zinc ion binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with LMO1: view
genes like me logo Genes that share phenotypes with LMO1: view

Human Phenotype Ontology for LMO1 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for LMO1 Gene

MGI Knock Outs for LMO1:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targets and HOMER Transcription for LMO1 Gene

Localization for LMO1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LMO1 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LMO1 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for LMO1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus ISS --
genes like me logo Genes that share ontologies with LMO1: view

Pathways & Interactions for LMO1 Gene

No Data Available

SIGNOR curated interactions for LMO1 Gene

Activates:

Gene Ontology (GO) - Biological Process for LMO1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IEA --
GO:0045944 positive regulation of transcription from RNA polymerase II promoter IMP 20855495
GO:0046013 regulation of T cell homeostatic proliferation IEA --
genes like me logo Genes that share ontologies with LMO1: view

No data available for Pathways by source for LMO1 Gene

Transcripts for LMO1 Gene

Unigene Clusters for LMO1 Gene

LIM domain only 1 (rhombotin 1):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LMO1 Gene

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

Relevant External Links for LMO1 Gene

GeneLoc Exon Structure for
LMO1
ECgene alternative splicing isoforms for
LMO1

Expression for LMO1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LMO1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LMO1 Gene

This gene is overexpressed in Muscle - Skeletal (x7.6), Skin - Not Sun Exposed (Suprapubic) (x6.1), Skin - Sun Exposed (Lower leg) (x4.3), and Brain - Hypothalamus (x4.2).

Protein differential expression in normal tissues from HIPED for LMO1 Gene

This gene is overexpressed in Urine (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for LMO1 Gene



Protein tissue co-expression partners for LMO1 Gene

NURSA nuclear receptor signaling pathways regulating expression of LMO1 Gene:

LMO1

SOURCE GeneReport for Unigene cluster for LMO1 Gene:

Hs.654426

mRNA Expression by UniProt/SwissProt for LMO1 Gene:

P25800-RBTN1_HUMAN
Tissue specificity: Expressed mainly in the central nervous. Low level of expression in other tissues including thymus.

Evidence on tissue expression from TISSUES for LMO1 Gene

  • Blood(4.3)
  • Eye(4.1)
genes like me logo Genes that share expression patterns with LMO1: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for LMO1 Gene

Orthologs for LMO1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for LMO1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LMO1 34 35
  • 100 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LMO1 35
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LMO1 34 35
  • 95.73 (n)
cow
(Bos Taurus)
Mammalia LMO1 34 35
  • 94.87 (n)
oppossum
(Monodelphis domestica)
Mammalia LMO1 35
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lmo1 34 16 35
  • 93.16 (n)
rat
(Rattus norvegicus)
Mammalia Lmo1 34
  • 92.9 (n)
chicken
(Gallus gallus)
Aves LMO1 35
  • 97 (a)
OneToOne
LOC100858792 34
  • 84.83 (n)
lizard
(Anolis carolinensis)
Reptilia LMO1 35
  • 94 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.32263 34
zebrafish
(Danio rerio)
Actinopterygii lmo1 35 34
  • 85.16 (n)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.9759 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000731 34
  • 73.18 (n)
fruit fly
(Drosophila melanogaster)
Insecta Bx 35 36
  • 27 (a)
OneToMany
rice
(Oryza sativa)
Liliopsida Os.9021 34
Species where no ortholog for LMO1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for LMO1 Gene

ENSEMBL:
Gene Tree for LMO1 (if available)
TreeFam:
Gene Tree for LMO1 (if available)

Paralogs for LMO1 Gene

Paralogs for LMO1 Gene

genes like me logo Genes that share paralogs with LMO1: view

Variants for LMO1 Gene

Sequence variations from dbSNP and Humsavar for LMO1 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs2168101 Benign 8,233,861(-) TTTTA(G/T)ATAAC intron-variant, nc-transcript-variant, upstream-variant-2KB
rs1000039567 -- 8,241,867(+) TTGGG(C/G)CCCTA intron-variant
rs1000101161 -- 8,246,254(+) TAGCA(A/G)CATTA intron-variant
rs1000232443 -- 8,236,942(+) ACGCA(C/T)GTTTA intron-variant, upstream-variant-2KB
rs1000237108 -- 8,252,008(+) TGTGA(A/G)TGTGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LMO1 Gene

Variant ID Type Subtype PubMed ID
nsv1040979 CNV gain 25217958
nsv1054339 CNV gain 25217958
nsv469936 CNV loss 18288195
nsv499766 OTHER inversion 21111241
nsv522567 CNV loss 19592680
nsv527329 CNV loss 19592680
nsv553446 CNV loss 21841781
nsv7215 OTHER inversion 18451855
nsv7663 CNV insertion 18451855

Variation tolerance for LMO1 Gene

Residual Variation Intolerance Score: 36.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.35; 7.81% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LMO1 Gene

Human Gene Mutation Database (HGMD)
LMO1
SNPedia medical, phenotypic, and genealogical associations of SNPs for
LMO1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LMO1 Gene

Disorders for LMO1 Gene

MalaCards: The human disease database

(6) MalaCards diseases for LMO1 Gene - From: Orphanet, DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
exencephaly
cd3epsilon deficiency
t-cell leukemia
  • leukemia t-cell
neuroblastoma
  • neuroblastoma 1
acute t cell leukemia
  • precursor t lymphoblastic leukemia
- elite association - COSMIC cancer census association via MalaCards
Search LMO1 in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

RBTN1_HUMAN
  • Note=A chromosomal aberration involving LMO1 may be a cause of a form of T-cell acute lymphoblastic leukemia (T-ALL). Translocation t(11,14)(p15;q11) with TCRD.

Genatlas disease for LMO1 Gene

acute lymphoblastic leukemia (T ALL),with translocation t(11;14)(p15;q11),and a LMO1/LDB1 interaction,likely involved in tumorigenesis

Relevant External Links for LMO1

Genetic Association Database (GAD)
LMO1
Human Genome Epidemiology (HuGE) Navigator
LMO1
Tumor Gene Database (TGDB):
LMO1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LMO1
genes like me logo Genes that share disorders with LMO1: view

Publications for LMO1 Gene

  1. Comparative architectural aspects of regions of conserved synteny on human chromosome 11p15.3 and mouse chromosome 7 (including genes WEE1 and LMO1). (PMID: 11528126) Cichutek A. … Zabel B.U. (Cytogenet. Cell Genet. 2001) 3 4 22 64
  2. T-cell translocation gene 1 (Ttg-1) encodes a nuclear protein normally expressed in neural lineage cells. (PMID: 1703797) McGuire E.A. … Korsmeyer S.J. (Blood 1991) 2 3 4 64
  3. Integrative genomics identifies LMO1 as a neuroblastoma oncogene. (PMID: 21124317) Wang K. … Maris J.M. (Nature 2011) 3 46 64
  4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  5. GASDERMIN, suppressed frequently in gastric cancer, is a target of LMO1 in TGF-beta-dependent apoptotic signalling. (PMID: 17471240) Saeki N. … Sasaki H. (Oncogene 2007) 3 22 64

Products for LMO1 Gene

Sources for LMO1 Gene

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