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Lima1 LIM domain and actin binding 1 [ Mus musculus (house mouse) ]

Gene ID: 65970, updated on 18-Apr-2024

Summary

Official Symbol
Lima1provided by MGI
Official Full Name
LIM domain and actin binding 1provided by MGI
Primary source
MGI:MGI:1920992
See related
Ensembl:ENSMUSG00000023022 AllianceGenome:MGI:1920992
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
Eplin
Summary
Enables actin filament binding activity. Involved in several processes, including cholesterol homeostasis; intestinal cholesterol absorption; and ruffle organization. Located in actin cytoskeleton; brush border membrane; and ruffle. Is expressed in several structures, including alimentary system; brain; genitourinary system; immune system; and respiratory system. Orthologous to human LIMA1 (LIM domain and actin binding 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in bladder adult (RPKM 44.8), colon adult (RPKM 23.3) and 27 other tissues See more
Orthologs
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Genomic context

Location:
15 F1; 15 56.13 cM
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (99676351..99773292, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (99778468..99875477, complement)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:99555871-99556054 Neighboring gene cytochrome c oxidase assembly protein 14 Neighboring gene ceramide synthase 5 Neighboring gene VISTA enhancer mm17 Neighboring gene predicted gene, 25897 Neighboring gene 60S ribosomal protein L37 pseudogene Neighboring gene predicted gene 17057 Neighboring gene STARR-seq mESC enhancer starr_39724 Neighboring gene STARR-seq mESC enhancer starr_39726 Neighboring gene STARR-seq mESC enhancer starr_39729 Neighboring gene predicted gene, 18095 Neighboring gene phosphoribosyl pyrophosphate synthetase 1 pseudogene

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) 
  • Gene trapped (1) 
  • Targeted (4)  1 citation

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • D15Ertd366e, 1110021C24Rik, 3526402A12Rik

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables actin binding IEA
Inferred from Electronic Annotation
more info
 
enables actin filament binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables actin filament binding IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables actin filament binding ISO
Inferred from Sequence Orthology
more info
 
enables actin monomer binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in actin filament bundle assembly IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in actin filament bundle assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cholesterol homeostasis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cholesterol metabolic process IEA
Inferred from Electronic Annotation
more info
 
involved_in intestinal cholesterol absorption IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within lipid metabolic process IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of actin filament depolymerization ISO
Inferred from Sequence Orthology
more info
 
involved_in ruffle organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in ruffle organization ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within steroid metabolic process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in actin cytoskeleton IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in actin cytoskeleton IDA
Inferred from Direct Assay
more info
PubMed 
located_in actin cytoskeleton ISO
Inferred from Sequence Orthology
more info
 
located_in brush border IDA
Inferred from Direct Assay
more info
PubMed 
located_in brush border membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in cell projection IEA
Inferred from Electronic Annotation
more info
 
located_in cleavage furrow ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in focal adhesion ISO
Inferred from Sequence Orthology
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 
located_in ruffle IDA
Inferred from Direct Assay
more info
PubMed 
located_in stress fiber ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
LIM domain and actin-binding protein 1
Names
epithelial protein lost in neoplasm

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_001113545.2NP_001107017.1  LIM domain and actin-binding protein 1 isoform a

    See identical proteins and their annotated locations for NP_001107017.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (a) encodes the longer isoform (a).
    Source sequence(s)
    AC134548, AC138177
    Consensus CDS
    CCDS49729.1
    UniProtKB/Swiss-Prot
    Q8K2H0, Q9ERG0, Q9ERG1
    UniProtKB/TrEMBL
    Q8C7S2
    Related
    ENSMUSP00000073371.4, ENSMUST00000073691.5
    Conserved Domains (1) summary
    cd09485
    Location:388440
    LIM_Eplin_alpha_beta; The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin)
  2. NM_023063.5NP_075550.2  LIM domain and actin-binding protein 1 isoform b

    See identical proteins and their annotated locations for NP_075550.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (b) uses an alternate 5'-terminal exon, lacks part of the 5' coding region, and initiates translation from a downstream start codon, compared to variant a. The encoded isoform (b) has a shorter N-terminus, compared to isoform a.
    Source sequence(s)
    AC134548
    Consensus CDS
    CCDS37206.1
    UniProtKB/TrEMBL
    Q8BT15, Q8CD09
    Related
    ENSMUSP00000104652.3, ENSMUST00000109024.9
    Conserved Domains (1) summary
    cd09485
    Location:228280
    LIM_Eplin_alpha_beta; The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin)

RNA

  1. NR_177985.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC134548, AC138177

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_000081.7 Reference GRCm39 C57BL/6J

    Range
    99676351..99773292 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006521245.2XP_006521308.1  LIM domain and actin-binding protein 1 isoform X1

    Conserved Domains (1) summary
    cd09485
    Location:101153
    LIM_Eplin_alpha_beta; The Lim domain of Epithelial Protein Lost in Neoplasm (Eplin)