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

Gene ID: 16826, updated on 12-May-2024

Summary

Official Symbol
Ldb2provided by MGI
Official Full Name
LIM domain binding 2provided by MGI
Primary source
MGI:MGI:894670
See related
Ensembl:ENSMUSG00000039706 AllianceGenome:MGI:894670
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
Summary
Enables LIM domain binding activity and enzyme binding activity. Involved in regulation of cell migration and regulation of kinase activity. Acts upstream of or within several processes, including epithelial structure maintenance; hair follicle development; and somatic stem cell population maintenance. Located in cell leading edge. Part of transcription regulator complex. Is expressed in several structures, including brain; branchial arch; eye; genitourinary system; and limb. Orthologous to human LDB2 (LIM domain binding 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in lung adult (RPKM 18.1), limb E14.5 (RPKM 9.7) and 21 other tissues See more
Orthologs
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Genomic context

See Ldb2 in Genome Data Viewer
Location:
5 B3; 5 24.24 cM
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (44593292..44957466, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (44435955..44799759, complement)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 36017 Neighboring gene predicted gene 5865 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 Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 
  • Targeted (2)  1 citation

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables LIM domain binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables enzyme binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
located_in cell leading edge IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleolus ISO
Inferred from Sequence Orthology
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 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 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)

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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_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
    ENSMUSP00000143775.2, ENSMUST00000199256.5
    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
    ENSMUSP00000142442.2, ENSMUST00000199534.5
    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
    Related
    ENSMUSP00000143289.2, ENSMUST00000199261.2
    Conserved Domains (2) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
    pfam17916
    Location:296324
    LID; LIM interaction domain (LID)
  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 (2) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
    pfam17916
    Location:295323
    LID; LIM interaction domain (LID)
  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
    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  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, O55205, Q3UHY1, Q6AXE6
    Related
    ENSMUSP00000067737.6, ENSMUST00000070748.10
    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000071.7 Reference GRCm39 C57BL/6J

    Range
    44593292..44957466 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036164828.1XP_036020721.1  LIM domain-binding protein 2 isoform X10

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  2. XM_036164830.1XP_036020723.1  LIM domain-binding protein 2 isoform X11

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  3. XM_017320689.3XP_017176178.1  LIM domain-binding protein 2 isoform X9

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  4. XM_036164827.1XP_036020720.1  LIM domain-binding protein 2 isoform X5

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  5. XM_030254170.2XP_030110030.1  LIM domain-binding protein 2 isoform X6

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  6. XM_036164825.1XP_036020718.1  LIM domain-binding protein 2 isoform X3

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  7. XM_030254171.2XP_030110031.1  LIM domain-binding protein 2 isoform X8

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  8. XM_006503752.4XP_006503815.1  LIM domain-binding protein 2 isoform X1

    Conserved Domains (2) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
    pfam17916
    Location:297325
    LID; LIM interaction domain (LID)
  9. XM_006503758.5XP_006503821.1  LIM domain-binding protein 2 isoform X7

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  10. XM_036164826.1XP_036020719.1  LIM domain-binding protein 2 isoform X4

    Conserved Domains (1) summary
    pfam01803
    Location:31232
    LIM_bind; LIM-domain binding protein
  11. XM_006503754.5XP_006503817.1  LIM domain-binding protein 2 isoform X2

    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