Atlas of Genetics and Cytogenetics in Oncology and Haematology


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LHX5 (LIM homeobox 5)

Identity

Alias (NCBI)-
HGNC (Hugo) LHX5
LocusID (NCBI) 64211
Atlas_Id 56041
Location 12q24.13  [Link to chromosome band 12q24]
Location_base_pair Starts at 113462033 and ends at 113471871 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)

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)LHX5   14216
Cards
Entrez_Gene (NCBI)LHX5    LIM homeobox 5
Aliases
GeneCards (Weizmann)LHX5
Ensembl hg19 (Hinxton)ENSG00000089116 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000089116 [Gene_View]  ENSG00000089116 [Sequence]  chr12:113462033-113471871 [Contig_View]  LHX5 [Vega]
ICGC DataPortalENSG00000089116
TCGA cBioPortalLHX5
AceView (NCBI)LHX5
Genatlas (Paris)LHX5
SOURCE (Princeton)LHX5
Genetics Home Reference (NIH)LHX5
Genomic and cartography
GoldenPath hg38 (UCSC)LHX5  -     chr12:113462033-113471871 -  12q24.13   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LHX5  -     12q24.13   [Description]    (hg19-Feb_2009)
GoldenPathLHX5 - 12q24.13 [CytoView hg19]  LHX5 - 12q24.13 [CytoView hg38]
ImmunoBaseENSG00000089116
genome Data Viewer NCBILHX5 [Mapview hg19]  
OMIM605992   
Gene and transcription
Genbank (Entrez)AF291181 BC109230
RefSeq transcript (Entrez)NM_022363
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LHX5
Alternative Splicing GalleryENSG00000089116
Gene ExpressionLHX5 [ NCBI-GEO ]   LHX5 [ EBI - ARRAY_EXPRESS ]   LHX5 [ SEEK ]   LHX5 [ MEM ]
Gene Expression Viewer (FireBrowse)LHX5 [ Firebrowse - Broad ]
GenevisibleExpression of LHX5 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)64211
GTEX Portal (Tissue expression)LHX5
Human Protein AtlasENSG00000089116-LHX5 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9H2C1   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9H2C1  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9H2C1
Splice isoforms : SwissVarQ9H2C1
PhosPhoSitePlusQ9H2C1
Domaine pattern : Prosite (Expaxy)HOMEOBOX_1 (PS00027)    HOMEOBOX_2 (PS50071)    LIM_DOMAIN_1 (PS00478)    LIM_DOMAIN_2 (PS50023)   
Domains : Interpro (EBI)Homeobox-like_sf    Homeobox_CS    Homeobox_dom    Znf_LIM   
Domain families : Pfam (Sanger)Homeodomain (PF00046)    LIM (PF00412)   
Domain families : Pfam (NCBI)pfam00046    pfam00412   
Domain families : Smart (EMBL)HOX (SM00389)  LIM (SM00132)  
Conserved Domain (NCBI)LHX5
Blocks (Seattle)LHX5
SuperfamilyQ9H2C1
Human Protein Atlas [tissue]ENSG00000089116-LHX5 [tissue]
Peptide AtlasQ9H2C1
HPRD09344
IPIIPI00022760   
Protein Interaction databases
DIP (DOE-UCLA)Q9H2C1
IntAct (EBI)Q9H2C1
BioGRIDLHX5
STRING (EMBL)LHX5
ZODIACLHX5
Ontologies - Pathways
QuickGOQ9H2C1
Ontology : AmiGOnuclear chromatin  RNA polymerase II regulatory region sequence-specific DNA binding  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  nucleus  spinal cord association neuron differentiation  cerebellar Purkinje cell differentiation  hippocampus development  cell proliferation in forebrain  forebrain neuron differentiation  cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation  neuron differentiation  positive regulation of transcription by RNA polymerase II  metal ion binding  
Ontology : EGO-EBInuclear chromatin  RNA polymerase II regulatory region sequence-specific DNA binding  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  DNA-binding transcription factor activity, RNA polymerase II-specific  nucleus  spinal cord association neuron differentiation  cerebellar Purkinje cell differentiation  hippocampus development  cell proliferation in forebrain  forebrain neuron differentiation  cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation  neuron differentiation  positive regulation of transcription by RNA polymerase II  metal ion binding  
NDEx NetworkLHX5
Atlas of Cancer Signalling NetworkLHX5
Wikipedia pathwaysLHX5
Orthology - Evolution
OrthoDB64211
GeneTree (enSembl)ENSG00000089116
Phylogenetic Trees/Animal Genes : TreeFamLHX5
HOGENOMQ9H2C1
Homologs : HomoloGeneLHX5
Homology/Alignments : Family Browser (UCSC)LHX5
Gene fusions - Rearrangements
Fusion : QuiverLHX5
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLHX5 [hg38]
dbVarLHX5
ClinVarLHX5
MonarchLHX5
1000_GenomesLHX5 
Exome Variant ServerLHX5
GNOMAD BrowserENSG00000089116
Varsome BrowserLHX5
Genomic Variants (DGV)LHX5 [DGVbeta]
DECIPHERLHX5 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLHX5 
Mutations
ICGC Data PortalLHX5 
TCGA Data PortalLHX5 
Broad Tumor PortalLHX5
OASIS PortalLHX5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLHX5  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DLHX5
Mutations and Diseases : HGMDLHX5
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch LHX5
DgiDB (Drug Gene Interaction Database)LHX5
DoCM (Curated mutations)LHX5 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LHX5 (select a term)
intoGenLHX5
Cancer3DLHX5(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605992   
Orphanet
DisGeNETLHX5
MedgenLHX5
Genetic Testing Registry LHX5
NextProtQ9H2C1 [Medical]
GENETestsLHX5
Target ValidationLHX5
Huge Navigator LHX5 [HugePedia]
ClinGenLHX5
Clinical trials, drugs, therapy
MyCancerGenomeLHX5
Protein Interactions : CTD
Pharm GKB GenePA30367
PharosQ9H2C1
Clinical trialLHX5
Miscellaneous
canSAR (ICR)LHX5 (select the gene name)
HarmonizomeLHX5
DataMed IndexLHX5
Probes
Litterature
PubMed8 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXLHX5
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Fri Jan 1 18:22:15 CET 2021

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