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Lmx1a
Gene Detail
 Symbol
Name
ID
Lmx1a
LIM homeobox transcription factor 1 alpha
MGI:1888519
Synonyms Lmx1.1, shaker short-tail
Feature Type protein coding gene
Genetic Map
Chromosome 1
75.08 cM
Detailed Genetic Map ± 1 cM


Mapping data(14)
Sequence Map
Chr1:167689237-167848741 bp, + strand
From VEGA annotation of GRCm38

  159505 bp   ±  kb flank

VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer


Mouse Genome Browser
Vertebrate
homology
HomoloGene:24921  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 rhesus macaque; 1 cattle; 1 dog; 1 chicken; 1 western clawed frog

Protein SuperFamily: transcription factor isl-1
Gene Tree: Lmx1a

Human
homologs
Human Homolog LMX1A, LIM homeobox transcription factor 1, alpha
NCBI Gene ID 4009
neXtProt AC  NX_Q8TE12
Human Synonyms  LMX1, LMX1.1
Human Chr (Location)  1q24.1; chr1:165201867-165356715 (-)  GRCh38
Mutations,
alleles, and
phenotypes
All mutations/alleles(19) : Spontaneous(15) Targeted(4)
Incidental mutations (data from Mutagenetix , APF )
 
Mutations in the dreher locus produce neurological and skeletal abnormalities, inner ear defects, and belly spotting. Deafness and hypoplasia of Mullerian duct derivatives are also reported for some alleles. Homozygous null mice have fewer dopaminergic neurons.
 
Phenotype Images(2)
Interactions
Lmx1a interacts with 279 markers (Mir7-1, Mir9-1, Mir9-2, ...)
Gene Ontology
(GO)
classifications
All GO classifications: (23 annotations)
Process axon guidance, brain development, ...
Component nucleus
Function DNA binding, metal ion binding, ...
External Resources: FuncBase
Expression
Literature Summary: (98 records)
Data Summary: Results (297)    Tissues (189)    Images (64)
Theiler Stages: 2, 3, 4, 5, 15, 16, 17, 19, 20, 21, 22, 23, 27, 28
Assay TypeResults
Immunohistochemistry 4
RNA in situ 264
In situ reporter (knock in) 20
Northern blot 1
RT-PCR 8
cDNA source data(15)
External Resources: Allen Institute   GEO   Expression Atlas
Molecular
reagents
All nucleic(25) Genomic(3) cDNA(15) Primer pair(2) Other(5)
Microarray probesets(2)
Other database
links
VEGA Gene ModelOTTMUSG00000020906 (Evidence)
Ensembl Gene ModelENSMUSG00000026686 (Evidence)
Entrez Gene110648 (Evidence)
UniGene330081
DFCITC1587228
DoTSDT.97407478
NIA Mouse Gene IndexU001059
Consensus CDS ProjectCCDS15460.1
International Mouse Knockout Project StatusLmx1a
Sequences
Representative SequencesLengthStrain/SpeciesFlank
genomic OTTMUSG00000020906 VEGA Gene Model | MGI Sequence Detail 159505 C57BL/6J ±  kb
transcript OTTMUST00000049416 VEGA | MGI Sequence Detail 3200 Not Applicable 
polypeptide OTTMUSP00000022890 VEGA | MGI Sequence Detail 382 Not Applicable 

For the selected sequences
All sequences(27) RefSeq(6) UniProt(2)
Polymorphisms SNPs within 2kb(1531 from dbSNP Build 137)
Protein-related
information
ResourceIDDescription
InterPro IPR017970 Homeobox, conserved site
InterPro IPR001356 Homeodomain
InterPro IPR009057 Homeodomain-like
InterPro IPR001781 Zinc finger, LIM-type
Protein Ontology PR:000009870 LIM homeobox transcription factor 1-alpha
References (Earliest) J:15346 FALCONER DS, et al., [Dreher, a new gene of the waltzer-shaker group in the house mouse.]. Z Indukt Abstamm Vererbungsl. 1951;84(2):71-3
(Latest) J:206629 Marklund U, et al., Detailed expression analysis of regulatory genes in the early developing human neural tube. Stem Cells Dev. 2014 Jan 1;23(1):5-15
All references(149)
Other
accession IDs
MGD-MRK-14613, MGD-MRK-8891, MGI:94923

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
Citing These Resources
Funding Information
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last database update
09/16/2014
MGI 5.19
The Jackson Laboratory