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    Ldb1 LIM domain binding 1 [ Mus musculus (house mouse) ]

    Gene ID: 16825, updated on 16-Sep-2017
    Official Symbol
    Ldb1provided by MGI
    Official Full Name
    LIM domain binding 1provided by MGI
    Primary source
    MGI:MGI:894762
    See related
    Ensembl:ENSMUSG00000025223 Vega:OTTMUSG00000033442
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    NLI; CLIM2
    Orthologs
    Location:
    19 C3; 19 38.75 cM
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 19 NC_000085.6 (46032589..46045515, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 19 NC_000085.5 (46107084..46119701, complement)

    Chromosome 19 - NC_000085.6Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 9130011E15 gene Neighboring gene ribosomal protein L21 pseudogene Neighboring gene RIKEN cDNA 4930505N22 gene Neighboring gene HPS6, biogenesis of lysosomal organelles complex 2 subunit 3 Neighboring gene peroxisome proliferative activated receptor, gamma, coactivator-related 1 Neighboring gene nucleolar and coiled-body phosphoprotein 1

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    contributes_to DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    LIM domain binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    LIM domain binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    LIM domain binding ISO
    Inferred from Sequence Orthology
    more info
     
    RNA polymerase II activating transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enhancer sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enzyme binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enzyme binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein homodimerization activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein self-association IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    transcription factor activity, transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    Wnt signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    anterior/posterior axis specification IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cellular component assembly IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    cerebellar Purkinje cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cerebellum development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    epithelial structure maintenance IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    gastrulation with mouth forming second IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    hair follicle development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    head development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    histone H3-K4 acetylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of erythrocyte differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    neuron differentiation IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    positive regulation of cell adhesion IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    positive regulation of hemoglobin biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of transcription from RNA polymerase II promoter IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    positive regulation of transcription from RNA polymerase II promoter IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of transcription from RNA polymerase II promoter ISO
    Inferred from Sequence Orthology
    more info
     
    primitive erythrocyte differentiation TAS
    Traceable Author Statement
    more info
    PubMed 
    regulation of DNA-templated transcription, elongation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of cell migration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of focal adhesion assembly IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of transcription from RNA polymerase II promoter IEA
    Inferred from Electronic Annotation
    more info
     
    somatic stem cell population maintenance IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    transcription from RNA polymerase II promoter IDA
    Inferred from Direct Assay
    more info
    PubMed 
    transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    cell leading edge IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nuclear chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    protein complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    transcription factor complex ISO
    Inferred from Sequence Orthology
    more info
     
    Preferred Names
    LIM domain-binding protein 1
    Names
    CLIM-2
    LDB-1
    LIM domain-binding factor CLIM2
    carboxyl-terminal LIM domain-binding protein 2
    mLdb1
    nuclear LIM interactor

    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_001113408.1NP_001106879.1  LIM domain-binding protein 1 isoform 1

      See identical proteins and their annotated locations for NP_001106879.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AF030333, CK790183, U69270
      Consensus CDS
      CCDS50455.1
      UniProtKB/Swiss-Prot
      P70662
      Related
      ENSMUSP00000139562.1, ENSMUST00000185355.6
      Conserved Domains (1) summary
      pfam01803
      Location:70271
      LIM_bind; LIM-domain binding protein
    2. NM_010697.1NP_034827.1  LIM domain-binding protein 1 isoform 3

      See identical proteins and their annotated locations for NP_034827.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) has a different 5'-terminal exon and 5' UTR, compared to variant 1. This variant encodes a protein (isoform 3) that lacks 36 aa at the N-terminus, compared to isoform 1.
      Source sequence(s)
      U69270
      Consensus CDS
      CCDS29870.1
      UniProtKB/Swiss-Prot
      P70662
      Related
      ENSMUSP00000053680.7, OTTMUSP00000045210, ENSMUST00000056931.13, OTTMUST00000084010
      Conserved Domains (1) summary
      pfam01803
      Location:34235
      LIM_bind; LIM-domain binding protein

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000085.6 Reference GRCm38.p4 C57BL/6J

      Range
      46032589..46045515 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006526723.2XP_006526786.2  LIM domain-binding protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006526786.2

      Related
      ENSMUSP00000116909.1, OTTMUSP00000045209, ENSMUST00000152946.7, OTTMUST00000084009
      Conserved Domains (1) summary
      pfam01803
      Location:70271
      LIM_bind; LIM-domain binding protein
    2. XM_011247157.1XP_011245459.1  LIM domain-binding protein 1 isoform X2

      See identical proteins and their annotated locations for XP_011245459.1

      UniProtKB/Swiss-Prot
      P70662
      Related
      ENSMUSP00000026252.7, OTTMUSP00000045208, ENSMUST00000026252.13, OTTMUST00000084008
      Conserved Domains (1) summary
      pfam01803
      Location:34235
      LIM_bind; LIM-domain binding protein
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