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Ldb2 LIM domain binding 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 289664, updated on 2-Nov-2024

Summary

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Official Symbol
Ldb2provided by RGD
Official Full Name
LIM domain binding 2provided by RGD
Primary source
RGD:1307921
See related
EnsemblRapid:ENSRNOG00000003205 AllianceGenome:RGD:1307921
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable LIM domain binding activity and enzyme binding activity. Predicted to be involved in several processes, including regulation of cell migration; regulation of kinase activity; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including epithelial structure maintenance; hair follicle development; and somatic stem cell population maintenance. Predicted to be located in cell leading edge; nuclear lumen; and plasma membrane. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Orthologous to human LDB2 (LIM domain binding 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Lung (RPKM 122.3), Uterus (RPKM 89.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Ldb2 in Genome Data Viewer
Location:
14q21
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (70489243..70810573)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (66277044..66598071)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (70780605..71112857)

Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene KDEL endoplasmic reticulum protein retention receptor 1, pseudogene 1 Neighboring gene uncharacterized LOC120096620 Neighboring gene uncharacterized LOC134481760 Neighboring gene uncharacterized LOC108352764 Neighboring gene uncharacterized LOC134481761 Neighboring gene Rac family small GTPase 1 like

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 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. The Ldb1 and Ldb2 transcriptional cofactors interact with the Ste20-like kinase SLK and regulate cell migration. Storbeck CJ, et al. Mol Biol Cell, 2009 Oct. PMID 19675209, Free PMC Article
  2. A family of LIM domain-associated cofactors confer transcriptional synergism between LIM and Otx homeodomain proteins. Bach I, et al. Genes Dev, 1997 Jun 1. PMID 9192866
  3. Selection system for genes encoding nuclear-targeted proteins. Ueki N, et al. Nat Biotechnol, 1998 Dec. PMID 9853615
  4. Co-factors of LIM domains (Clims/Ldb/Nli) regulate corneal homeostasis and maintenance of hair follicle stem cells. Xu X, et al. Dev Biol, 2007 Dec 15. PMID 17991461, Free PMC Article
  5. Ubiquitination-dependent cofactor exchange on LIM homeodomain transcription factors. Ostendorff HP, et al. Nature, 2002 Mar 7. PMID 11882901

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables LIM domain binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables enzyme binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within epithelial structure maintenance ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within hair follicle development ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in nervous system development IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within positive regulation of cellular component biogenesis 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 regulation of cell migration ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of kinase activity IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of kinase activity ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within somatic stem cell population maintenance ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cell leading edge ISO
Inferred from Sequence Orthology
more info
  
located_in nucleolus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  
part_of transcription regulator complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of transcription regulator complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
LIM domain-binding protein 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_001106009.1 → NP_001099479.1  LIM domain-binding protein 2

    See identical proteins and their annotated locations for NP_001099479.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473963
    UniProtKB/TrEMBL
    A6IJM3
    Conserved Domains (2) summary
    pfam01803
    Location:31 → 232
    LIM_bind; LIM-domain binding protein
    pfam17916
    Location:298 → 326
    LID; LIM interaction domain (LID)

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_086032.1 Reference GRCr8

    Range
    70489243..70810573
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017599112.3 → XP_017454601.1  LIM domain-binding protein 2 isoform X8

    UniProtKB/TrEMBL
    B5DF10, E9PTQ0
    Related
    ENSRNOP00000055594.5, ENSRNOT00000058803.5
    Conserved Domains (1) summary
    pfam01803
    Location:31 → 232
    LIM_bind; LIM-domain binding protein

  2. XM_063272933.1 → XP_063129003.1  LIM domain-binding protein 2 isoform X7

  3. XM_017599113.3 → XP_017454602.1  LIM domain-binding protein 2 isoform X11

    Conserved Domains (1) summary
    pfam01803
    Location:31 → 232
    LIM_bind; LIM-domain binding protein

  4. XM_063272934.1 → XP_063129004.1  LIM domain-binding protein 2 isoform X9

  5. XM_008770200.4 → XP_008768422.1  LIM domain-binding protein 2 isoform X2

    See identical proteins and their annotated locations for XP_008768422.1

    UniProtKB/TrEMBL
    A0A8J8XZV4
    Conserved Domains (2) summary
    pfam01803
    Location:31 → 232
    LIM_bind; LIM-domain binding protein
    pfam17916
    Location:296 → 324
    LID; LIM interaction domain (LID)

  6. XM_008770203.4 → XP_008768425.1  LIM domain-binding protein 2 isoform X10

    Conserved Domains (1) summary
    pfam01803
    Location:31 → 232
    LIM_bind; LIM-domain binding protein

  7. XM_008770199.4 → XP_008768421.1  LIM domain-binding protein 2 isoform X1

    Conserved Domains (2) summary
    pfam01803
    Location:31 → 232
    LIM_bind; LIM-domain binding protein
    pfam17916
    Location:297 → 325
    LID; LIM interaction domain (LID)

  8. XM_008770201.4 → XP_008768423.1  LIM domain-binding protein 2 isoform X3

    Conserved Domains (2) summary
    pfam01803
    Location:31 → 232
    LIM_bind; LIM-domain binding protein
    pfam17916
    Location:295 → 323
    LID; LIM interaction domain (LID)

  9. XM_017599109.3 → XP_017454598.1  LIM domain-binding protein 2 isoform X4

    UniProtKB/TrEMBL
    A0A0G2K287
    Conserved Domains (1) summary
    pfam01803
    Location:31 → 232
    LIM_bind; LIM-domain binding protein

  10. XM_063272932.1 → XP_063129002.1  LIM domain-binding protein 2 isoform X4

    UniProtKB/TrEMBL
    A0A0G2K287

  11. XM_017599111.3 → XP_017454600.1  LIM domain-binding protein 2 isoform X6

    UniProtKB/TrEMBL
    A0A0G2K287
    Related
    ENSRNOP00000072146.3, ENSRNOT00000083871.3
    Conserved Domains (1) summary
    pfam01803
    Location:31 → 232
    LIM_bind; LIM-domain binding protein

  12. XM_008770202.4 → XP_008768424.1  LIM domain-binding protein 2 isoform X5

    Conserved Domains (1) summary
    pfam01803
    Location:31 → 232
    LIM_bind; LIM-domain binding protein
Nucleotide Protein Strain
Heading Accession and Version

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