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Lhx5 LIM homeobox protein 5 [ Mus musculus (house mouse) ]

Gene ID: 16873, updated on 20-Jul-2021

Summary

Official Symbol
Lhx5provided by MGI
Official Full Name
LIM homeobox protein 5provided by MGI
Primary source
MGI:MGI:107792
See related
Ensembl:ENSMUSG00000029595
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
Li; Lim2
Expression
Biased expression in CNS E11.5 (RPKM 6.4), whole brain E14.5 (RPKM 6.0) and 5 other tissues See more
Orthologs
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Genomic context

See Lhx5 in Genome Data Viewer
Location:
5 F; 5 60.62 cM
Exon count:
5
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (120569951..120579522)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (120431886..120441457)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 5 NC_000071.5 (120881895..120891466)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 31836 Neighboring gene predicted gene 27199 Neighboring gene predicted gene, 31976 Neighboring gene serine dehydratase-like Neighboring gene phospholipase B domain containing 2 Neighboring gene serine dehydratase

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)
  • Targeted (1)  1 citation
  • Endonuclease-mediated (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within cell proliferation in forebrain IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cell-cell signaling IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within cerebellar Purkinje cell differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within cerebellum development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within forebrain neuron differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within hippocampus development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in neuron differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of transcription, DNA-templated IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within regulation of cell population proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
involved_in spinal cord association neuron differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
LIM/homeobox protein Lhx5
Names
LIM homeo box protein 5

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_008499.5NP_032525.1  LIM/homeobox protein Lhx5

    See identical proteins and their annotated locations for NP_032525.1

    Status: VALIDATED

    Source sequence(s)
    AC129553
    Consensus CDS
    CCDS19617.1
    UniProtKB/Swiss-Prot
    P61375
    UniProtKB/TrEMBL
    Q543P4
    Related
    ENSMUSP00000031591.7, ENSMUST00000031591.10
    Conserved Domains (4) summary
    cd09367
    Location:556
    LIM1_Lhx1_Lhx5; The first LIM domain of Lhx1 (also known as Lim1) and Lhx5
    cd09375
    Location:64119
    LIM2_Lhx1_Lhx5; The second LIM domain of Lhx1 (also known as Lim1) and Lhx5
    PHA03378
    Location:247392
    PHA03378; EBNA-3B; Provisional
    pfam00046
    Location:183237
    Homeobox; Homeobox domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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
    120569951..120579522
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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