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Lmo2 LIM domain only 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 362176, updated on 27-Nov-2024

Summary

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Official Symbol
Lmo2provided by RGD
Official Full Name
LIM domain only 2provided by RGD
Primary source
RGD:1307101
See related
EnsemblRapid:ENSRNOG00000009401 AllianceGenome:RGD:1307101
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable several functions, including DNA-binding transcription factor binding activity; identical protein binding activity; and transcription coactivator activity. Predicted to contribute to DNA binding activity. Predicted to be involved in negative regulation of erythrocyte differentiation and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within embryonic hemopoiesis. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Orthologous to human LMO2 (LIM domain only 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Spleen (RPKM 277.0), Lung (RPKM 169.0) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Lmo2 in Genome Data Viewer
Location:
3q32
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (110810162..110832895)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (90355234..90377970)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (93909156..93931888)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene cytochrome c oxidase subunit 4i1, pseudogene 1 Neighboring gene uncharacterized LOC120101615 Neighboring gene uncharacterized LOC102551977 Neighboring gene uncharacterized LOC102552075 Neighboring gene uncharacterized LOC108350426 Neighboring gene small Cajal body-specific RNA 21 Neighboring gene F-box protein 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Lmo2 and GATA-3 associated expression in intraembryonic hemogenic sites. Manaia A, et al. Development, 2000 Feb. PMID 10631184
  2. The LIM-domain binding protein Ldb1 and its partner LMO2 act as negative regulators of erythroid differentiation. Visvader JE, et al. Proc Natl Acad Sci U S A, 1997 Dec 9. PMID 9391090, Free PMC Article
  3. Human Bex2 interacts with LMO2 and regulates the transcriptional activity of a novel DNA-binding complex. Han C, et al. Nucleic Acids Res, 2005. PMID 16314316, Free PMC Article
  4. SCL and associated proteins distinguish active from repressive GATA transcription factor complexes. Tripic T, et al. Blood, 2009 Mar 5. PMID 19011221, Free PMC Article
  5. GAR22: a novel target gene of thyroid hormone receptor causes growth inhibition in human erythroid cells. Gamper I, et al. Exp Hematol, 2009 May. PMID 19375645

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC124678

Gene Ontology Provided by RGD

Function Evidence Code Pubs
contributes_to DNA binding ISO
Inferred from Sequence Orthology
more info
  
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 ISO
Inferred from Sequence Orthology
more info
  
enables bHLH transcription factor binding ISO
Inferred from Sequence Orthology
more info
  
enables chromatin binding ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables transcription coactivator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transcription coactivator activity ISO
Inferred from Sequence Orthology
more info
  
enables transcription coregulator binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
acts_upstream_of_or_within embryonic hemopoiesis ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of erythrocyte differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
  
part_of transcription regulator complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
rhombotin-2

NCBI Reference Sequences (RefSeq)

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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_001037358.2 → NP_001032435.2  rhombotin-2 isoform 1

    See identical proteins and their annotated locations for NP_001032435.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    BC105772
    UniProtKB/TrEMBL
    A0A0G2K3R4, A0A0G2QC60
    Related
    ENSRNOP00000012625.7, ENSRNOT00000012625.8
    Conserved Domains (2) summary
    cd09384
    Location:92 → 147
    LIM1_LMO2; The first LIM domain of LMO2 (LIM domain only protein 2)
    cd09385
    Location:156 → 211
    LIM2_LMO2; The second LIM domain of LMO2 (LIM domain only protein 2)

  2. NM_001244779.1 → NP_001231708.1  rhombotin-2 isoform 2

    See identical proteins and their annotated locations for NP_001231708.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has an alternate 5' exon, which results in a downstream AUG start codon, compared to variant 1. The resulting isoform (2) is shorter at the N-terminus than isoform 1.
    Source sequence(s)
    BC105772, DY319476
    UniProtKB/TrEMBL
    A0A0G2KAY6, F1LNA1, Q3KRD2
    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_001244780.1 → NP_001231709.1  rhombotin-2 isoform 2

    See identical proteins and their annotated locations for NP_001231709.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) has an alternate 5' exon, which results in a downstream AUG start codon, compared to variant 1. The resulting isoform (2) is shorter at the N-terminus than isoform 1.
    Source sequence(s)
    BC105772, CO559731
    UniProtKB/TrEMBL
    A0A0G2KAY6, F1LNA1, Q3KRD2
    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)

  4. NM_001244781.1 → NP_001231710.1  rhombotin-2 isoform 2

    See identical proteins and their annotated locations for NP_001231710.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks a segment in the 5' region, which results in a downstream AUG start codon, compared to variant 1. The resulting isoform (2) is shorter at the N-terminus than isoform 1.
    Source sequence(s)
    BC105772, CK476274
    UniProtKB/TrEMBL
    A0A0G2KAY6, F1LNA1, Q3KRD2
    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)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086021.1 Reference GRCr8

    Range
    110810162..110832895
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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