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LMX1B (LIM homeobox transcription factor 1 beta)

Identity

Alias_namesNPS1
LIM homeobox transcription factor 1
Other aliasLMX1.2
HGNC (Hugo) LMX1B
LocusID (NCBI) 4010
Atlas_Id 54946
Location 9q33.3  [Link to chromosome band 9q33]
Location_base_pair Starts at 129376722 and ends at 129463311 bp from pter ( according to hg19-Feb_2009)

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)LMX1B   6654
LRG (Locus Reference Genomic)LRG_1014
Cards
Entrez_Gene (NCBI)LMX1B  4010  LIM homeobox transcription factor 1 beta
AliasesLMX1.2; NPS1
GeneCards (Weizmann)LMX1B
Ensembl hg19 (Hinxton)ENSG00000136944 [Gene_View]  chr9:129376722-129463311 [Contig_View]  LMX1B [Vega]
Ensembl hg38 (Hinxton)ENSG00000136944 [Gene_View]  chr9:129376722-129463311 [Contig_View]  LMX1B [Vega]
ICGC DataPortalENSG00000136944
TCGA cBioPortalLMX1B
AceView (NCBI)LMX1B
Genatlas (Paris)LMX1B
WikiGenes4010
SOURCE (Princeton)LMX1B
Genetics Home Reference (NIH)LMX1B
Genomic and cartography
GoldenPath hg19 (UCSC)LMX1B  -     chr9:129376722-129463311 +  9q33.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)LMX1B  -     9q33.3   [Description]    (hg38-Dec_2013)
EnsemblLMX1B - 9q33.3 [CytoView hg19]  LMX1B - 9q33.3 [CytoView hg38]
Mapping of homologs : NCBILMX1B [Mapview hg19]  LMX1B [Mapview hg38]
OMIM161200   602575   
Gene and transcription
Genbank (Entrez)AF057135 BC069588 BC069601 BC112120 BC113491
RefSeq transcript (Entrez)NM_001174146 NM_001174147 NM_002316
RefSeq genomic (Entrez)NC_000009 NC_018920 NG_017039 NT_008470 NW_004929366
Consensus coding sequences : CCDS (NCBI)LMX1B
Cluster EST : UnigeneHs.129133 [ NCBI ]
CGAP (NCI)Hs.129133
Alternative Splicing GalleryENSG00000136944
Gene ExpressionLMX1B [ NCBI-GEO ]   LMX1B [ EBI - ARRAY_EXPRESS ]   LMX1B [ SEEK ]   LMX1B [ MEM ]
Gene Expression Viewer (FireBrowse)LMX1B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)4010
GTEX Portal (Tissue expression)LMX1B
Protein : pattern, domain, 3D structure
UniProt/SwissProtO60663   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO60663  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO60663
Splice isoforms : SwissVarO60663
PhosPhoSitePlusO60663
Domaine pattern : Prosite (Expaxy)HOMEOBOX_1 (PS00027)    HOMEOBOX_2 (PS50071)    LIM_DOMAIN_1 (PS00478)    LIM_DOMAIN_2 (PS50023)   
Domains : Interpro (EBI)Homeobox_CS    Homeobox_dom    Homeodomain-like    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)LMX1B
DMDM Disease mutations4010
Blocks (Seattle)LMX1B
SuperfamilyO60663
Human Protein AtlasENSG00000136944
Peptide AtlasO60663
HPRD03986
IPIIPI00956472   IPI00220363   IPI00030989   
Protein Interaction databases
DIP (DOE-UCLA)O60663
IntAct (EBI)O60663
FunCoupENSG00000136944
BioGRIDLMX1B
STRING (EMBL)LMX1B
ZODIACLMX1B
Ontologies - Pathways
QuickGOO60663
Ontology : AmiGORNA polymerase II regulatory region sequence-specific DNA binding  in utero embryonic development  transcription factor activity, sequence-specific DNA binding  protein binding  nucleus  transcription, DNA-templated  regulation of transcription, DNA-templated  multicellular organism development  zinc ion binding  dorsal/ventral pattern formation  neuron differentiation  positive regulation of transcription from RNA polymerase II promoter  positive regulation of transcription from RNA polymerase II promoter  dopaminergic neuron differentiation  
Ontology : EGO-EBIRNA polymerase II regulatory region sequence-specific DNA binding  in utero embryonic development  transcription factor activity, sequence-specific DNA binding  protein binding  nucleus  transcription, DNA-templated  regulation of transcription, DNA-templated  multicellular organism development  zinc ion binding  dorsal/ventral pattern formation  neuron differentiation  positive regulation of transcription from RNA polymerase II promoter  positive regulation of transcription from RNA polymerase II promoter  dopaminergic neuron differentiation  
NDEx NetworkLMX1B
Atlas of Cancer Signalling NetworkLMX1B
Wikipedia pathwaysLMX1B
Orthology - Evolution
OrthoDB4010
GeneTree (enSembl)ENSG00000136944
Phylogenetic Trees/Animal Genes : TreeFamLMX1B
HOVERGENO60663
HOGENOMO60663
Homologs : HomoloGeneLMX1B
Homology/Alignments : Family Browser (UCSC)LMX1B
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLMX1B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LMX1B
dbVarLMX1B
ClinVarLMX1B
1000_GenomesLMX1B 
Exome Variant ServerLMX1B
ExAC (Exome Aggregation Consortium)LMX1B (select the gene name)
Genetic variants : HAPMAP4010
Genomic Variants (DGV)LMX1B [DGVbeta]
DECIPHER (Syndromes)9:129376722-129463311  ENSG00000136944
CONAN: Copy Number AnalysisLMX1B 
Mutations
ICGC Data PortalLMX1B 
TCGA Data PortalLMX1B 
Broad Tumor PortalLMX1B
OASIS PortalLMX1B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLMX1B  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLMX1B
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 LMX1B
DgiDB (Drug Gene Interaction Database)LMX1B
DoCM (Curated mutations)LMX1B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LMX1B (select a term)
intoGenLMX1B
Cancer3DLMX1B(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM161200    602575   
Orphanet392   
MedgenLMX1B
Genetic Testing Registry LMX1B
NextProtO60663 [Medical]
TSGene4010
GENETestsLMX1B
Huge Navigator LMX1B [HugePedia]
snp3D : Map Gene to Disease4010
BioCentury BCIQLMX1B
ClinGenLMX1B (curated)
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD4010
Chemical/Pharm GKB GenePA30417
Clinical trialLMX1B
Miscellaneous
canSAR (ICR)LMX1B (select the gene name)
Probes
Litterature
PubMed61 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLMX1B
EVEXLMX1B
GoPubMedLMX1B
iHOPLMX1B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Mar 30 15:07:16 CEST 2017

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