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Ldb2 LIM domain binding 2 [ Mus musculus (house mouse) ]

Gene ID: 16826, updated on 12-Aug-2018

Summary

Official Symbol
Ldb2provided by MGI
Official Full Name
LIM domain binding 2provided by MGI
Primary source
MGI:MGI:894670
See related
Ensembl:ENSMUSG00000039706 Vega:OTTMUSG00000053817
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
Ldb3; CLIM1; CLP-36; AI035351; AW146358
Expression
Broad expression in lung adult (RPKM 18.1), limb E14.5 (RPKM 9.7) and 21 other tissues See more
Orthologs

Genomic context

See Ldb2 in Genome Data Viewer
Location:
5; 5 B3
Exon count:
10
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 5 NC_000071.6 (44436079..44799760, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 5 NC_000071.5 (44863372..45190946, complement)

Chromosome 5 - NC_000071.6Genomic Context describing neighboring genes Neighboring gene predicted gene, 36017 Neighboring gene predicted gene, 40297 Neighboring gene predicted gene, 36076 Neighboring gene RIKEN cDNA 4930431F12 gene

Genomic regions, transcripts, and products

Expression

  • 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

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
LIM domain binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
LIM domain binding IPI
Inferred from Physical Interaction
more info
PubMed 
RNA polymerase II activating transcription factor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enzyme binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription coregulator activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
epithelial structure maintenance IGI
Inferred from Genetic Interaction
more info
PubMed 
hair follicle development IGI
Inferred from Genetic Interaction
more info
PubMed 
multicellular organism development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of transcription, DNA-templated IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of cellular component biogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
PubMed 
regulation of cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
somatic stem cell population maintenance IGI
Inferred from Genetic Interaction
more info
PubMed 
Component Evidence Code Pubs
cell leading edge IDA
Inferred from Direct Assay
more info
PubMed 
nucleolus ISO
Inferred from Sequence Orthology
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus ISO
Inferred from Sequence Orthology
more info
 
plasma membrane ISO
Inferred from Sequence Orthology
more info
 
transcription factor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transcription factor complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
LIM domain-binding protein 2
Names
LIM domain-binding factor CLIM1
carboxyl-terminal LIM domain-binding protein 1

NCBI Reference Sequences (RefSeq)

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_001077398.2NP_001070866.1  LIM domain-binding protein 2 isoform 2

    See identical proteins and their annotated locations for NP_001070866.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site and contains an alternate exon in the 3' coding region, compared to variant 1. It encodes isoform 2, which is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AK146860, BB679977, BY068608
    Consensus CDS
    CCDS80278.1
    UniProtKB/Swiss-Prot
    O55203
    Related
    ENSMUSP00000143775.1, OTTMUSP00000071120, ENSMUST00000199256.4, OTTMUST00000133953
    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  2. NM_001286348.1NP_001273277.1  LIM domain-binding protein 2 isoform 3

    See identical proteins and their annotated locations for NP_001273277.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains an alternate exon in the 3' coding region and differs in the 3' UTR, compared to variant 1. It encodes isoform 3, which is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AK147160, BB679977, BC079611, BY068608
    Consensus CDS
    CCDS80276.1
    UniProtKB/Swiss-Prot
    O55203
    Related
    ENSMUSP00000142442.1, OTTMUSP00000071835, ENSMUST00000199534.4, OTTMUST00000135905
    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  3. NM_001347349.1NP_001334278.1  LIM domain-binding protein 2 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (4) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC102487, AC111033, AC129607
    Consensus CDS
    CCDS84878.1
    UniProtKB/TrEMBL
    A0A0G2JFS7
    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  4. NM_001359070.1NP_001345999.1  LIM domain-binding protein 2 isoform 5

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) uses two alternate in-frame splice junctions in the 3' coding sequence compared to variant 1. The resulting isoform (5) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC102487, AC111033, AC129607
    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  5. NM_001359071.1NP_001346000.1  LIM domain-binding protein 2 isoform 6

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) uses an alternate 3' splice junction compared to variant 1. The resulting isoform (6) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC102487, AC111033, AC129607
  6. NM_010698.4NP_034828.3  LIM domain-binding protein 2 isoform 1

    See identical proteins and their annotated locations for NP_034828.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AK146860, BB679977, BC079611, BY068608
    Consensus CDS
    CCDS19271.1
    UniProtKB/Swiss-Prot
    O55203
    Related
    ENSMUSP00000067737.5, OTTMUSP00000071122, ENSMUST00000070748.9, OTTMUST00000133955
    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000071.6 Reference GRCm38.p4 C57BL/6J

    Range
    44436079..44799760 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017320689.1XP_017176178.1  LIM domain-binding protein 2 isoform X9

  2. XM_017320688.1XP_017176177.1  LIM domain-binding protein 2 isoform X3

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  3. XM_006503752.2XP_006503815.1  LIM domain-binding protein 2 isoform X1

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  4. XM_006503755.3XP_006503818.1  LIM domain-binding protein 2 isoform X5

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  5. XM_006503756.3XP_006503819.1  LIM domain-binding protein 2 isoform X6

    See identical proteins and their annotated locations for XP_006503819.1

    UniProtKB/Swiss-Prot
    O55203
    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  6. XM_006503754.3XP_006503817.1  LIM domain-binding protein 2 isoform X4

    See identical proteins and their annotated locations for XP_006503817.1

    UniProtKB/Swiss-Prot
    O55203
    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  7. XM_006503753.2XP_006503816.1  LIM domain-binding protein 2 isoform X2

    Related
    ENSMUSP00000143289.1, OTTMUSP00000071121, ENSMUST00000199261.1, OTTMUST00000133954
    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  8. XM_006503758.3XP_006503821.1  LIM domain-binding protein 2 isoform X8

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  9. XM_006503757.3XP_006503820.1  LIM domain-binding protein 2 isoform X7

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
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