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LMX1A (LIM homeobox transcription factor 1 alpha)

Identity

Alias_namesLMX1
LIM homeobox transcription factor 1
Alias_symbol (synonym)LMX1.1
Other alias
HGNC (Hugo) LMX1A
LocusID (NCBI) 4009
Atlas_Id 52143
Location 1q23.3  [Link to chromosome band 1q23]
Location_base_pair Starts at 165201867 and ends at 165356241 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
LMX1A (1q23.3) / LELP1 (1q21.3)LMX1A 1q23.3 / LELP1 1q21.3

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)LMX1A   6653
Cards
Entrez_Gene (NCBI)LMX1A  4009  LIM homeobox transcription factor 1 alpha
AliasesLMX1; LMX1.1
GeneCards (Weizmann)LMX1A
Ensembl hg19 (Hinxton)ENSG00000162761 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000162761 [Gene_View]  chr1:165201867-165356241 [Contig_View]  LMX1A [Vega]
ICGC DataPortalENSG00000162761
TCGA cBioPortalLMX1A
AceView (NCBI)LMX1A
Genatlas (Paris)LMX1A
WikiGenes4009
SOURCE (Princeton)LMX1A
Genetics Home Reference (NIH)LMX1A
Genomic and cartography
GoldenPath hg38 (UCSC)LMX1A  -     chr1:165201867-165356241 -  1q23.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LMX1A  -     1q23.3   [Description]    (hg19-Feb_2009)
EnsemblLMX1A - 1q23.3 [CytoView hg19]  LMX1A - 1q23.3 [CytoView hg38]
Mapping of homologs : NCBILMX1A [Mapview hg19]  LMX1A [Mapview hg38]
OMIM600298   
Gene and transcription
Genbank (Entrez)AK122800 AK127724 BC066353 BC119743 BC119744
RefSeq transcript (Entrez)NM_001033507 NM_001174069 NM_177398 NM_177399
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LMX1A
Cluster EST : UnigeneHs.667312 [ NCBI ]
CGAP (NCI)Hs.667312
Alternative Splicing GalleryENSG00000162761
Gene ExpressionLMX1A [ NCBI-GEO ]   LMX1A [ EBI - ARRAY_EXPRESS ]   LMX1A [ SEEK ]   LMX1A [ MEM ]
Gene Expression Viewer (FireBrowse)LMX1A [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)4009
GTEX Portal (Tissue expression)LMX1A
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8TE12   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8TE12  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8TE12
Splice isoforms : SwissVarQ8TE12
PhosPhoSitePlusQ8TE12
Domaine pattern : Prosite (Expaxy)HOMEOBOX_1 (PS00027)    HOMEOBOX_2 (PS50071)    LIM_DOMAIN_1 (PS00478)    LIM_DOMAIN_2 (PS50023)   
Domains : Interpro (EBI)Homeobox-like    Homeobox_CS    Homeobox_dom    Znf_LIM   
Domain families : Pfam (Sanger)Homeobox (PF00046)    LIM (PF00412)   
Domain families : Pfam (NCBI)pfam00046    pfam00412   
Domain families : Smart (EMBL)HOX (SM00389)  LIM (SM00132)  
Conserved Domain (NCBI)LMX1A
DMDM Disease mutations4009
Blocks (Seattle)LMX1A
SuperfamilyQ8TE12
Human Protein AtlasENSG00000162761
Peptide AtlasQ8TE12
HPRD02623
IPIIPI00152586   IPI00328299   
Protein Interaction databases
DIP (DOE-UCLA)Q8TE12
IntAct (EBI)Q8TE12
FunCoupENSG00000162761
BioGRIDLMX1A
STRING (EMBL)LMX1A
ZODIACLMX1A
Ontologies - Pathways
QuickGOQ8TE12
Ontology : AmiGORNA polymerase II regulatory region sequence-specific DNA binding  regulation of cell growth  protein binding  nucleus  transcription, DNA-templated  axon guidance  memory  locomotory behavior  zinc ion binding  dentate gyrus development  cerebellum development  olfactory behavior  negative regulation of neuron differentiation  positive regulation of transcription from RNA polymerase II promoter  synapse organization  dopaminergic neuron differentiation  midbrain dopaminergic neuron differentiation  midbrain dopaminergic neuron differentiation  
Ontology : EGO-EBIRNA polymerase II regulatory region sequence-specific DNA binding  regulation of cell growth  protein binding  nucleus  transcription, DNA-templated  axon guidance  memory  locomotory behavior  zinc ion binding  dentate gyrus development  cerebellum development  olfactory behavior  negative regulation of neuron differentiation  positive regulation of transcription from RNA polymerase II promoter  synapse organization  dopaminergic neuron differentiation  midbrain dopaminergic neuron differentiation  midbrain dopaminergic neuron differentiation  
NDEx NetworkLMX1A
Atlas of Cancer Signalling NetworkLMX1A
Wikipedia pathwaysLMX1A
Orthology - Evolution
OrthoDB4009
GeneTree (enSembl)ENSG00000162761
Phylogenetic Trees/Animal Genes : TreeFamLMX1A
HOVERGENQ8TE12
HOGENOMQ8TE12
Homologs : HomoloGeneLMX1A
Homology/Alignments : Family Browser (UCSC)LMX1A
Gene fusions - Rearrangements
Fusion : MitelmanLMX1A/LELP1 [1q23.3/1q21.3]  
Fusion: TCGALMX1A 1q23.3 LELP1 1q21.3 LUAD
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLMX1A [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LMX1A
dbVarLMX1A
ClinVarLMX1A
1000_GenomesLMX1A 
Exome Variant ServerLMX1A
ExAC (Exome Aggregation Consortium)LMX1A (select the gene name)
Genetic variants : HAPMAP4009
Genomic Variants (DGV)LMX1A [DGVbeta]
DECIPHERLMX1A [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLMX1A 
Mutations
ICGC Data PortalLMX1A 
TCGA Data PortalLMX1A 
Broad Tumor PortalLMX1A
OASIS PortalLMX1A [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLMX1A  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLMX1A
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch LMX1A
DgiDB (Drug Gene Interaction Database)LMX1A
DoCM (Curated mutations)LMX1A (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LMX1A (select a term)
intoGenLMX1A
Cancer3DLMX1A(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600298   
Orphanet
MedgenLMX1A
Genetic Testing Registry LMX1A
NextProtQ8TE12 [Medical]
TSGene4009
GENETestsLMX1A
Target ValidationLMX1A
Huge Navigator LMX1A [HugePedia]
snp3D : Map Gene to Disease4009
BioCentury BCIQLMX1A
ClinGenLMX1A
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD4009
Chemical/Pharm GKB GenePA30416
Clinical trialLMX1A
Miscellaneous
canSAR (ICR)LMX1A (select the gene name)
Probes
Litterature
PubMed36 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLMX1A
EVEXLMX1A
GoPubMedLMX1A
iHOPLMX1A
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Jun 7 12:40:50 CEST 2017

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