FB2022_02, released March 29, 2022

Gene: Dmel\lbm

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General Information
Symbol
Dmel\lbm
Species
D. melanogaster
Name
late bloomer
Annotation Symbol
CG2374
Feature Type
protein_coding_gene
FlyBase ID
FBgn0016032
Gene Model Status
Current
Stock Availability
8 publicly available
Gene Summary
Facilitates synapse formation. (UniProt, Q24188)
Contribute a Gene Snapshot for this gene.
All Summaries
Also Known As

lbl

Key Links
Genomic Location
Cytogenetic map
42E6-42E6
Sequence location
Recombination map
2-55
RefSeq locus
NT_033778 REGION:7049238..7051964
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (4 terms)
Molecular Function (0 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Biological Process (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
involved_in synapse assembly
inferred from mutant phenotype
(Kopczynski et al., 1996)
Terms Based on Predictions or Assertions (0 terms)
Cellular Component (3 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
located_in extracellular region
inferred from direct assay
(Kopczynski et al., 1996)
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
located_in extracellular region
inferred from sequence or structural similarity
(Kopczynski et al., 1996)
located_in integral component of membrane
inferred from sequence model
(Fradkin et al., 2002)
inferred from sequence or structural similarity
(Todres et al., 2000)
is_active_in integral component of plasma membrane
inferred from biological aspect of ancestor with PANTHER:PTN001060286
(assigned by GO_Central )
(Gaudet et al., 2011)
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the tetraspanin (TM4SF) family. (Q24188)
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
TETRASPANINS -
Tetraspanins (TSP) have four transmembrane domains and two extracellular loops containing specific short motifs, including highly conserved cysteine residues. TSPs are thought to function as scaffolds that bring multiple proteins - including other TSPs, membrane-associated proteins, extracellular and cytosolic proteins - into single membrane region. These regions are called tetraspanin-enriched microdomains. (Adapted from FBrf0227776 and FBrf0152316).
Protein Function (UniProtKB)
Facilitates synapse formation.
(UniProt, Q24188)
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\lbm for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Structure New Section
Protein 3D structure   (Predicted by AlphaFold)   (AlphaFold entry Q24188)

If you don't see the viewer to the right, refresh your browser.
Model Confidence:
  • Very high (pLDDT > 90)
  • Confident (90 > pLDDT > 70)
  • Low (70 > pLDDT > 50)
  • Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Comments on Gene Model

Gene model reviewed during 5.48

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
lbm-RA
FBtr0089033
NM_078915
1029
208
lbm-RB
FBtr0336873
NM_001273828
923
208
Additional Transcript Data and Comments
Reported size (kB)

1.0 (longest cDNA)

(Kopczynski et al., 1996)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
lbm-PA
FBpp0088104
23.0
208
4.62
NP_523639
AAF59302
lbm-PB
FBpp0307822
23.0
208
4.62
NP_001260757
AGB93290
Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

208 aa isoforms: lbm-PA, lbm-PB
Additional Polypeptide Data and Comments
Reported size (kDa)

208 (aa)

(Kopczynski et al., 1996)
Comments
External Data
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\lbm using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Expression Data
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 16
motor neuron
• axon
(Kopczynski et al., 1996)
Additional Descriptive Data

lbm protein, a cell surface protein, is transiently expressed along the entire length of motor axons, including their growth cones and presynaptic terminals. The protein is present in late embryogenesis,but disappears by third larval instar.

(Kopczynski et al., 1996)
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in extracellular region
inferred from direct assay
(Kopczynski et al., 1996)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\lbm in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 11-12
  • Stages(s) 13-16
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 11 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 4 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of lbm
Transgenic constructs containing regulatory region of lbm
Aberrations (Deficiencies and Duplications) ( 2 )
Inferred from experimentation ( 2 )
Gene disrupted in
Df(2R)Δ42E
(Lin et al., 2005)
Df(2R)Exel6283
(Ryder, 2004.4.26)
Inferred from location ( 0 )
Alleles Representing Disease-Implicated Variants
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\CD63
2 of 15
Yes
No
1  
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Cd63
2 of 15
Yes
No
Rattus norvegicus (Norway rat) (1)
Rnor\Cd63
2 of 13
Yes
No
Xenopus tropicalis (Western clawed frog) (1)
Xtro\cd63
1 of 12
Yes
No
Danio rerio (Zebrafish) (1)
Drer\cd63
2 of 15
Yes
No
Caenorhabditis elegans (Nematode, roundworm) (7)
Cele\tsp-7
2 of 15
Yes
No
Cele\tsp-4
1 of 15
No
No
Cele\tsp-5
1 of 15
No
No
Cele\tsp-6
1 of 15
No
No
Cele\tsp-8
1 of 15
No
No
Cele\tsp-9
1 of 15
No
No
Cele\tsp-13
1 of 15
No
No
Arabidopsis thaliana (thale-cress) (4)
Atha\AT2G20230
1 of 9
Yes
No
Atha\AT2G20740
1 of 9
Yes
Yes
Atha\AT4G28770
1 of 9
Yes
No
Atha\TOM2A
1 of 9
Yes
No
Saccharomyces cerevisiae (Brewer's yeast) (0)
No records found.
Schizosaccharomyces pombe (Fission yeast) (0)
No records found.
Other Organism Orthologs (via OrthoDB)
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (34)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
Tsp3A
2 of 10
Tsp26A
2 of 10
Tsp29Fa
2 of 10
Tsp33B
2 of 10
Tsp42Ea
2 of 10
Tsp42Eb
2 of 10
Tsp42Ec
2 of 10
Tsp42Ed
2 of 10
Tsp42Ee
2 of 10
Tsp42Ef
2 of 10
Tsp42Eg
2 of 10
Tsp42Eh
2 of 10
Tsp42Ei
2 of 10
Tsp42El
2 of 10
Tsp42En
2 of 10
Tsp42Ep
2 of 10
Tsp42Er
2 of 10
Tsp47F
2 of 10
Tsp66E
2 of 10
Tsp86D
2 of 10
Tsp96F
2 of 10
Tsp97E
2 of 10
CG30160
1 of 10
TM4SF
1 of 10
Tsp2A
1 of 10
Tsp5D
1 of 10
Tsp29Fb
1 of 10
Tsp39D
1 of 10
Tsp42Ej
1 of 10
Tsp42Ek
1 of 10
Tsp42Eo
1 of 10
Tsp42Eq
1 of 10
Tsp68C
1 of 10
Tsp74F
1 of 10
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Model Summary Ribbon
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 0 )
    Human Ortholog
    Disease
    Evidence
    References
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    Disease Associations of Human Orthologs (via DIOPT v8.0 and OMIM)
    Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    DO term
    Complementation?
    Transgene?
    Functional Complementation Data
    Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
    Interactions
    Summary of Physical Interactions
    esyN Network Diagram
    Interactions Browser
    Summary of Genetic Interactions
    esyN Network Diagram
    esyN Network Key:
    Suppression
    Enhancement
    View in Interactions Browser
    Please look at the allele data for full details of the genetic interactions
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    kay
    suppressible
    lbm
    (Franciscovich et al., 2008)
    External Data
    Linkouts
    DroID - A comprehensive database of gene and protein interactions.
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    External Data
    Linkouts
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    2R
    Recombination map
    2-55
    Cytogenetic map
    42E6-42E6
    Sequence location
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    42E6-42E6
    Limits computationally determined from genome sequence between P{lacW}vimark16722 and P{lacW}cosk16101
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    42F1-42F1
    (Kopczynski, 1996.2.12)
    Experimentally Determined Recombination Data
    Location

    2-55

    (FlyBase, 2016)

    2-56.3

    (Comeron et al., 2012)

    2-

    (Kopczynski, 1996.2.12)
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (8)
    Genomic Clones (24)
    cDNA Clones (14)
     

    Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.

    cDNA clones, fully sequenced
    BDGP DGC clones
    Other clones
      Drosophila Genomics Resource Center cDNA clones

      For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

      cDNA Clones, End Sequenced (ESTs)
      BDGP DGC clones
      Other clones
      RNAi and Array Information
      Linkouts
      DRSC - Results frm RNAi screens
      GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
      Antibody Information
      Laboratory Generated Antibodies
       

      polyclonal

      (Kopczynski et al., 1996)
      Commercially Available Antibodies
       
      Developmental Studies Hybridoma Bank - Monoclonal antibodies for use in research
      Other Information
      Relationship to Other Genes
      Source for database identify of

      Source for identity of: lbm CG2374

      (Shue, 1999.11)
      Source for database merge of
      Additional comments
      Other Comments

      Expression is enriched in embryonic gonads.

      (Shigenobu et al., 2006)

      lbm encodes a neural tetraspanin that facilitates synapse formation.

      (Kopczynski et al., 1996)
      Origin and Etymology
      Discoverer
      Etymology
      Identification
      External Crossreferences and Linkouts ( 40 )
      Sequence Crossreferences
      NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
      GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
      GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
      RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
      UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.
      UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
      UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
      Other crossreferences
      AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.
      BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
      Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
      DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
      EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
      Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
      FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
      FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
      Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
      Flygut - An atlas of the Drosophila adult midgut
      GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
      iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
      InterPro - A database of protein families, domains and functional sites
      KEGG Genes - Molecular building blocks of life in the genomic space.
      MARRVEL_MODEL - MARRVEL (model organism gene)
      modMine - A data warehouse for the modENCODE project
      Linkouts
      DroID - A comprehensive database of gene and protein interactions.
      DRSC - Results frm RNAi screens
      Developmental Studies Hybridoma Bank - Monoclonal antibodies for use in research
      FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
      FlyMine - An integrated database for Drosophila genomics
      Synonyms and Secondary IDs (12)
      Datasets (8)
      Study focus (0)
      Experimental Role
      Project
      Project Type
      Title
      Study result (8)
      Result
      Result Type
      Title
      scRNAseq_2020_Cattenoz_NI_seq_clustering
      Clustering analysis of hemocytes from non-infested third instar larvae
      scRNAseq_2020_Cattenoz_WI_seq_clustering
      Clustering analysis of hemocytes from wasp-infested third instar larvae
      scRNAseq_2020_Cho_NI72LG_seq_clustering
      Clustering analysis of lymph gland cells from non-infested larvae at 72 h after egg-laying
      scRNAseq_2020_Cho_NI96LG_seq_clustering
      Clustering analysis of lymph gland cells from non-infested larvae at 96 h after egg-laying
      scRNAseq_2020_Cho_NI120LG_seq_clustering
      Clustering analysis of lymph gland cells from non-infested larvae at 120 h after egg-laying
      scRNAseq_2020_Cho_WI96LG_seq_clustering
      Clustering analysis of lymph gland cells from wasp-infested larvae at 96 h after egg-laying
      scRNAseq_2020_Cho_NI96HL_seq_clustering
      Clustering analysis of circulating hemocytes from non-infested larvae at 96 h after egg-laying
      scRNAseq_2020_Cho_NI120HL_seq_clustering
      Clustering analysis of circulating hemocytes from non-infested larvae at 120 h after egg-laying
      References (59)