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

    Gene ID: 4005, updated on 27-Nov-2024

    Summary

    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See LMO2 in Genome Data Viewer
    Location:
    11p13
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (33858576..33892076, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (33995616..34029225, complement)
    RS_2024_09 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

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    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 identical protein 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 
    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

    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)

    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_001142315.2NP_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:3085
      LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
      cd09385
      Location:94149
      LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)
    2. NM_001142316.2NP_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:3085
      LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
      cd09385
      Location:94149
      LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)
    3. NM_005574.4NP_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:99154
      LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
      cd09385
      Location:163218
      LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    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_017017733.2XP_016873222.1  rhombotin-2 isoform X2

      UniProtKB/Swiss-Prot
      P25791, Q9HD58
      Conserved Domains (2) summary
      cd09384
      Location:3085
      LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
      cd09385
      Location:94149
      LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)
    2. XM_047426944.1XP_047282900.1  rhombotin-2 isoform X1

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

      UniProtKB/Swiss-Prot
      P25791, Q9HD58
    4. XM_047426945.1XP_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_054368779.1XP_054224754.1  rhombotin-2 isoform X2

      UniProtKB/Swiss-Prot
      P25791, Q9HD58
    2. XM_054368775.1XP_054224750.1  rhombotin-2 isoform X1

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

      UniProtKB/Swiss-Prot
      P25791, Q9HD58
    4. XM_054368777.1XP_054224752.1  rhombotin-2 isoform X2

      UniProtKB/Swiss-Prot
      P25791, Q9HD58
    5. XM_054368774.1XP_054224749.1  rhombotin-2 isoform X1

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

      UniProtKB/Swiss-Prot
      P25791, Q9HD58