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    LMO2 LIM domain only 2 [ Homo sapiens (human) ]

    Gene ID: 4005, updated on 5-Mar-2024

    Summary

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    Official Symbol
    LMO2provided by HGNC
    Official Full Name
    LIM domain only 2provided by HGNC
    Primary source
    HGNC:HGNC:6642
    See related
    Ensembl:ENSG00000135363 MIM:180385; AllianceGenome:HGNC:6642
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    TTG2; LMO-2; RBTN2; RHOM2; RBTNL1
    Summary
    LMO2 encodes a cysteine-rich, two LIM-domain protein that is required for yolk sac erythropoiesis. The LMO2 protein has a central and crucial role in hematopoietic development and is highly conserved. The LMO2 transcription start site is located approximately 25 kb downstream from the 11p13 T-cell translocation cluster (11p13 ttc), where a number T-cell acute lymphoblastic leukemia-specific translocations occur. Alternative splicing results in multiple transcript variants encoding different isoforms.[provided by RefSeq, Nov 2008]
    Expression
    Broad expression in bone marrow (RPKM 14.3), lymph node (RPKM 11.4) and 24 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    Location:
    11p13
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (33858576..33892076, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (33995616..34029225, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (33880122..33913623, complement)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2722 Neighboring gene long intergenic non-protein coding RNA 2721 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3244 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:33879525-33879698 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3245 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3246 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3247 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3248 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4586 Neighboring gene uncharacterized LOC105376621 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4587 Neighboring gene uncharacterized LOC124902659

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Potential link of single nucleotide polymorphisms within LMO2 to the risk of cervical squamous-cell carcinoma in Chinese populations. Wang H, et al. Asian J Surg, 2023 Feb. PMID 35999096
    2. LMO2 expression is frequent in T-lymphoblastic leukemia and correlates with survival, regardless of T-cell stage. Latchmansingh KA, et al. Mod Pathol, 2022 Sep. PMID 35322192, Free PMC Article
    3. LMO2 plays differential roles in trophoblast subtypes and is associated with preeclampsia. Chen Y, et al. Biochem Biophys Res Commun, 2022 May 14. PMID 35286869
    4. Identification of LMO2 as a new marker for acinic cell carcinoma of salivary gland. Sheng D, et al. Diagn Pathol, 2022 Jan 30. PMID 35094691, Free PMC Article
    5. Lack of expression of LMO2 clone SP51 identifies MYC rearrangements in aggressive large B-cell lymphomas. Vazquez I, et al. Virchows Arch, 2021 Dec. PMID 33811533

    See all (151) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Simulated microgravity altered the gene expression profiles and inhibited the proliferation of Kupffer cells in the early phase by downregulating LMO2 and EZH2.
      Title: Simulated microgravity altered the gene expression profiles and inhibited the proliferation of Kupffer cells in the early phase by downregulating LMO2 and EZH2.
    2. LMO2 promotes the development of AML through interaction with transcription co-regulator LDB1.
      Title: LMO2 promotes the development of AML through interaction with transcription co-regulator LDB1.
    3. Value of GCET1, HGAL (GCET2), and LMO2 in the Determination of Germinal Center Phenotype in Diffuse Large B-cell Lymphoma.
      Title: Value of GCET1, HGAL (GCET2), and LMO2 in the Determination of Germinal Center Phenotype in Diffuse Large B-cell Lymphoma.
    4. PAK5 is a potential target in myelodysplastic syndrome through interacting with LMO2 and GATA1.
      Title: PAK5 is a potential target in myelodysplastic syndrome through interacting with LMO2 and GATA1.
    5. Potential link of single nucleotide polymorphisms within LMO2 to the risk of cervical squamous-cell carcinoma in Chinese populations.
      Title: Potential link of single nucleotide polymorphisms within LMO2 to the risk of cervical squamous-cell carcinoma in Chinese populations.
    6. LMO2 expression is frequent in T-lymphoblastic leukemia and correlates with survival, regardless of T-cell stage.
      Title: LMO2 expression is frequent in T-lymphoblastic leukemia and correlates with survival, regardless of T-cell stage.
    7. LMO2 plays differential roles in trophoblast subtypes and is associated with preeclampsia.
      Title: LMO2 plays differential roles in trophoblast subtypes and is associated with preeclampsia.
    8. Identification of LMO2 as a new marker for acinic cell carcinoma of salivary gland.
      Title: Identification of LMO2 as a new marker for acinic cell carcinoma of salivary gland.
    9. Lack of expression of LMO2 clone SP51 identifies MYC rearrangements in aggressive large B-cell lymphomas.
      Title: Lack of expression of LMO2 clone SP51 identifies MYC rearrangements in aggressive large B-cell lymphomas.
    10. MiR-223 Suppresses Proliferation and Promotes Apoptosis of Diffuse Large B-Cell Lymphoma Cells Through Lmo2 and MAPK Signaling Pathway.
      Title: MiR-223 Suppresses Proliferation and Promotes Apoptosis of Diffuse Large B-Cell Lymphoma Cells Through Lmo2 and MAPK Signaling Pathway.
    Submit: New GeneRIF Correction See all GeneRIFs (95)

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    A genome-wide study of common SNPs and CNVs in cognitive performance in the CANTAB.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription factor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II-specific DNA-binding transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables bHLH transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transcription coactivator activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables transcription coregulator binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of transcription regulator complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    rhombotin-2
    Names
    LIM domain only protein 2
    T-cell translocation gene 2
    T-cell translocation protein 2
    cysteine-rich protein TTG-2
    rhombotin-like 1

    NCBI Reference Sequences (RefSeq)

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    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_001142315.2 → NP_001135787.1  rhombotin-2 isoform 2

      See identical proteins and their annotated locations for NP_001135787.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and lacks a portion of the 5' coding region, compared to variant 1. These differences cause translation initiation at a downstream in-frame ATG and an isoform (2) with a shorter N-terminus, compared to isoform 1. Variants 2 and 3 encode the same isoform (2).
      Source sequence(s)
      AC113192, BM690599, BM699014, X61118
      Consensus CDS
      CCDS44567.1
      UniProtKB/Swiss-Prot
      P25791, Q9HD58
      Conserved Domains (2) summary
      cd09384
      Location:30 → 85
      LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
      cd09385
      Location:94 → 149
      LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)

    2. NM_001142316.2 → NP_001135788.1  rhombotin-2 isoform 2

      See identical proteins and their annotated locations for NP_001135788.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and has an additional segment downstream of the 5' coding region, compared to variant 1. These differences cause translation initiation at a downstream in-frame ATG and an isoform (2) with a shorter N-terminus, compared to isoform 1. Variants 2 and 3 encode the same isoform (2).
      Source sequence(s)
      AC113192, AC132216, BC035607, X61118
      Consensus CDS
      CCDS44567.1
      UniProtKB/Swiss-Prot
      P25791, Q9HD58
      Related
      ENSP00000379175.3, ENST00000395833.7
      Conserved Domains (2) summary
      cd09384
      Location:30 → 85
      LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
      cd09385
      Location:94 → 149
      LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)

    3. NM_005574.4 → NP_005565.2  rhombotin-2 isoform 1

      See identical proteins and their annotated locations for NP_005565.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform.
      Source sequence(s)
      AC113192, AC132216, CN355348, X61118
      Consensus CDS
      CCDS7888.2
      UniProtKB/Swiss-Prot
      P25791
      Related
      ENSP00000257818.2, ENST00000257818.3
      Conserved Domains (2) summary
      cd09384
      Location:99 → 154
      LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
      cd09385
      Location:163 → 218
      LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      33858576..33892076 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017017733.2 → XP_016873222.1  rhombotin-2 isoform X2

      UniProtKB/Swiss-Prot
      P25791, Q9HD58
      Conserved Domains (2) summary
      cd09384
      Location:30 → 85
      LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
      cd09385
      Location:94 → 149
      LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)

    2. XM_047426944.1 → XP_047282900.1  rhombotin-2 isoform X1

    3. XM_047426946.1 → XP_047282902.1  rhombotin-2 isoform X2

      UniProtKB/Swiss-Prot
      P25791, Q9HD58

    4. XM_047426945.1 → XP_047282901.1  rhombotin-2 isoform X2

      UniProtKB/Swiss-Prot
      P25791, Q9HD58

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      33995616..34029225 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054368779.1 → XP_054224754.1  rhombotin-2 isoform X2

      UniProtKB/Swiss-Prot
      P25791, Q9HD58

    2. XM_054368775.1 → XP_054224750.1  rhombotin-2 isoform X1

    3. XM_054368778.1 → XP_054224753.1  rhombotin-2 isoform X2

      UniProtKB/Swiss-Prot
      P25791, Q9HD58

    4. XM_054368777.1 → XP_054224752.1  rhombotin-2 isoform X2

      UniProtKB/Swiss-Prot
      P25791, Q9HD58

    5. XM_054368774.1 → XP_054224749.1  rhombotin-2 isoform X1

    6. XM_054368776.1 → XP_054224751.1  rhombotin-2 isoform X2

      UniProtKB/Swiss-Prot
      P25791, Q9HD58
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P25791.1 GenPept UniProtKB/Swiss-Prot:P25791

    Gene LinkOut

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

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