FB2022_03, released June 9, 2022

Gene: Dmel\pck

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General Information
Symbol
Dmel\pck
Species
D. melanogaster
Name
pickel
Annotation Symbol
CG14779
Feature Type
protein_coding_gene
FlyBase ID
FBgn0013720
Gene Model Status
Current
Stock Availability
10 publicly available
Gene Summary
pickel (pck) encodes a transmembrane protein of the Claudin superfamily. It is part of the septate junction (SJ) core complex and essential for SJ morphogenesis and function. The transepithelial barrier function of epithelial tissues is affected in pck mutants. [Date last reviewed: 2019-03-14] (FlyBase Gene Snapshot)
All Summaries
Also Known As

mega, megatrachea, EG:80H7.2 , l(1)G0044

Key Links
Genomic Location
Cytogenetic map
Sequence location
Recombination map
1-0.2
RefSeq locus
NC_004354 REGION:1470666..1472325
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 (7 terms)
Molecular Function (0 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Biological Process (5 terms)
Terms Based on Experimental Evidence (5 terms)
CV Term
Evidence
References
involved_in establishment of glial blood-brain barrier
inferred from mutant phenotype
(Stork et al., 2008)
involved_in liquid clearance, open tracheal system
inferred from mutant phenotype
(Jaspers et al., 2012)
involved_in open tracheal system development
inferred from mutant phenotype
(Behr et al., 2003, Beitel and Krasnow, 2000)
involved_in regulation of tube size, open tracheal system
inferred from mutant phenotype
(Beitel and Krasnow, 2000)
involved_in septate junction assembly
inferred from mutant phenotype
(Behr et al., 2003)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
involved_in regulation of tube size, open tracheal system
inferred from biological aspect of ancestor with PANTHER:PTN001083506
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in septate junction assembly
inferred from biological aspect of ancestor with PANTHER:PTN001083506
(assigned by GO_Central )
(Gaudet et al., 2011)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
located_in septate junction
inferred from direct assay
(Jaspers et al., 2012)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
located_in integral component of membrane
inferred from electronic annotation with InterPro:IPR004031
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
inferred from sequence model
(Jaspers et al., 2012)
is_active_in septate junction
inferred from biological aspect of ancestor with PANTHER:PTN001083506
(assigned by GO_Central )
(Gaudet et al., 2011)
located_in septate junction
inferred from sequence or structural similarity with FLYBASE:sinu; FB:FBgn0010894
(Wu et al., 2004)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Snapshot
pickel (pck) encodes a transmembrane protein of the Claudin superfamily. It is part of the septate junction (SJ) core complex and essential for SJ morphogenesis and function. The transepithelial barrier function of epithelial tissues is affected in pck mutants. [Date last reviewed: 2019-03-14]
Gene Model and Products
Number of Transcripts
3
Number of Unique Polypeptides
2

Please see the JBrowse view of Dmel\pck 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 O76899)

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 5.49

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
pck-RA
FBtr0070255
NM_166887
1399
256
pck-RC
FBtr0070256
NM_130563
1289
256
pck-RD
FBtr0100198
NM_001038731
1360
136
Additional Transcript Data and Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
UniProt
RefSeq ID
GenBank
pck-PA
FBpp0070245
29.8
256
8.64
O76899
NP_726742
AAF45632
pck-PC
FBpp0070246
29.8
256
8.64
O76899
NP_569919
AAG22385
pck-PD
FBpp0099568
15.6
136
8.36
Q2PE37
NP_001033820
ABC67163
Polypeptides with Identical Sequences

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

256 aa isoforms: pck-PA, pck-PC
Additional Polypeptide Data and Comments
Reported size (kDa)
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\pck using the Feature Mapper tool.

External Data
Crossreferences
Linkouts
Expression Data
Expression Summary Ribbons
Colored tiles in ribbon indicate that the Fly Cell Atlas project found the gene expressed in that cell type. Darker colors mean that more cells of that cell type express the gene:
 low
high 
Colorless tiles indicate that there is no scRNAseq data for the gene in that cell type.
Colored tiles in ribbon indicate that expression data (RNA and/or protein) has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
Colored tiles in the ribbon indicate the average RNA expression level of the gene at the indicated stages:
 low
high 
as determined by RNA-seq (RPKM) using whole organism samples modENCODE, Brown et al., 2014. For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 1 -- 3
organism

Comment: maternally deposited

(Fisher et al., 2012)
embryonic stage 4 -- 6
organism
(Fisher et al., 2012)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in septate junction
inferred from direct assay
(Jaspers et al., 2012)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\pck 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
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 7 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 11 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of pck
Transgenic constructs containing regulatory region of pck
Aberrations (Deficiencies and Duplications) ( 22 )
Alleles Representing Disease-Implicated Variants
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
lethal, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
lethal | recessive
lethal - all die during embryonic stage
lethal - all die during embryonic stage, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
lethal - all die during embryonic stage | recessive
viable
Other Phenotypes
Allele
some die during embryonic stage
some die during embryonic stage | recessive
Phenotype manifest in
Allele
abdominal 1 ventral denticle belt
abdominal 2 ventral denticle belt
abdominal 3 ventral denticle belt
abdominal 4 ventral denticle belt
abdominal 5 ventral denticle belt
abdominal 6 ventral denticle belt
abdominal 7 ventral denticle belt
cuticle
embryonic/larval tracheal dorsal trunk
embryonic/larval tracheal section
embryonic/larval tracheal section | embryonic stage
embryonic/larval tracheal system
embryonic/larval tracheal transverse connective
embryonic dorsal trunk & cell
epidermal cell | embryonic stage
pleated septate junction & tracheal system
tracheal dorsal trunk primordium
tracheal dorsal trunk primordium | embryonic stage
tracheal dorsal trunk primordium | embryonic stage 14
tracheal section
tracheal section | embryonic stage
tracheal transverse connective primordium
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (2)
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\CLDND1
1 of 15
Yes
No
Hsap\LIM2
1 of 15
Yes
Yes
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\Cldnd1
1 of 15
Yes
No
Rattus norvegicus (Norway rat) (2)
Rnor\Cldnd1
1 of 13
Yes
No
Rnor\Lim2
1 of 13
Yes
Yes
Xenopus tropicalis (Western clawed frog) (4)
Xtro\cldnd1
1 of 12
Yes
Yes
Xtro\lim2
1 of 12
Yes
Yes
Xtro\LOC100487261
1 of 12
Yes
Yes
Xtro\LOC101731523
1 of 12
Yes
Yes
Danio rerio (Zebrafish) (4)
Drer\cldnd1a
1 of 15
Yes
Yes
Drer\cldnd1b
1 of 15
Yes
Yes
Drer\lim2.4
1 of 15
Yes
Yes
Drer\lim2.5
1 of 15
Yes
Yes
Caenorhabditis elegans (Nematode, roundworm) (0)
No records found.
Arabidopsis thaliana (thale-cress) (0)
No records found.
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) (2)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
kune
4 of 10
sinu
4 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
    Show neighbor-neighbor interactions:
    Select Layout:
    Legend:
    Protein
    RNA
    Selected Interactor(s)
    Interactions Browser
    View in Interactions Browser
    Please see the Physical Interaction reports below for full details
    RNA-RNA
    Physical Interaction
    Assay
    References
    pck - mir-184
    luminiscence technology
    (Iovino et al., 2009, Kertesz et al., 2007)
    RNA-protein
    Physical Interaction
    Assay
    References
    pck - AGO1
    anti bait coimmunoprecipitation, quantitative reverse transcription pcr
    (Hong et al., 2009)
    protein-protein
    Physical Interaction
    Assay
    References
    pck - wrm1
    anti tag coimmunoprecipitation, anti tag western blot, anti bait coimmunoprecipitation, Identification by mass spectrometry
    (Königsmann et al., 2020)
    Summary of Genetic Interactions
    esyN Network Diagram
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    External Data
    Linkouts
    BioGRID - A database of protein and genetic interactions.
    DroID - A comprehensive database of gene and protein interactions.
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    External Data
    Linkouts
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    X
    Recombination map
    1-0.2
    Cytogenetic map
    2A4-2A4
    Sequence location
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    2A4-2A4
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    2A1-2A2
    (determined by in situ hybridization) 2B1--4 (determined by in situ hybridization)
    (Peter et al., 2002, Schäfer et al., 1999.6.15)
    2B1-2B4
    (determined by in situ hybridization) 2A3--B2 (determined by in situ hybridization)
    (Schäfer et al., 1999.8.12)
    Location 2B1--4 inferred from insertion in: pckG0012
    (Schäfer et al., 1999.8.12)
    Experimentally Determined Recombination Data
    Location

    1-0.2

    (FlyBase, 2016)

    1-0.1

    (Comeron et al., 2012)
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (10)
    Genomic Clones (8)
     

    Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

    cDNA Clones (60)
     

    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
       

      monoclonal

      (Jaspers et al., 2012)
      Commercially Available Antibodies
       
      Other Information
      Relationship to Other Genes
      Source for database identify of

      Source for identity of: pck mega

      (Beitel and Krasnow, 2000)
      Source for database merge of

      Source for merge of: pck l(1)G0012

      (Wu et al., 2004)

      Source for merge of: l(1)G0012 CG14779 l(1)G0044

      (Peter et al., 2002)
      Additional comments
      Other Comments

      Proper targetting of pck gene product to the pleated septate junctions in the tracheal system depends on Nrx-IV and cora but not Fas3.

      (Behr et al., 2003)

      Maternal expression of pck is not essential for normal development or viability.

      (Behr et al., 2003)

      Mutation in pck alters tracheal tube size in embryos without affecting other aspects of tracheal development including primary branch budding and outgrowth or branch fusion.

      (Beitel and Krasnow, 2000)
      Origin and Etymology
      Discoverer
      Etymology
      Identification
      External Crossreferences and Linkouts ( 46 )
      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/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
      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
      BioGRID - A database of protein and genetic interactions.
      DroID - A comprehensive database of gene and protein interactions.
      DRSC - Results frm RNAi screens
      FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
      FlyMine - An integrated database for Drosophila genomics
      MIST (protein-protein) - An integrated Molecular Interaction Database
      Synonyms and Secondary IDs (12)
      Reported As
      Symbol Synonym
      CG14779
      (Jaspers et al., 2012, Metta and Schlötterer, 2010, Ni et al., 2010.12.1, Wu et al., 2004)
      EG:80H7.2
      (Giot et al., 2003, Peter et al., 2002, Benos et al., 2001, Benos, 2000.12.13)
      Mega
      (Pannen et al., 2020, Skouloudaki et al., 2019, Jaspers et al., 2014, Laprise et al., 2010, Harder et al., 2008, Kertesz et al., 2007, Furuse and Tsukita, 2006, Behr et al., 2005, Jane et al., 2005)
      PCK
      (Bassett et al., 2014)
      Pck
      (Caussinus et al., 2011)
      l(1)G0044
      (Peter et al., 2002, Schäfer et al., 1999.6.15, Schäfer et al., 1999.8.12)
      mega
      (Behr and Riedel, 2020, Königsmann et al., 2020, Drees et al., 2019, Tempesta et al., 2017, Hildebrandt et al., 2015, Bätz et al., 2014, Jaspers et al., 2012, Nelson et al., 2010, Harder et al., 2008, Luschnig et al., 2006, Moussian et al., 2006, Tonning et al., 2005, Anderson et al., 2004, Wu and Beitel, 2004, Wu et al., 2004, Behr et al., 2003, Paul et al., 2003, Behr and Schuh, 2002, Beitel and Krasnow, 2000)
      pck
      (Rouka et al., 2021, Graves et al., 2020, Sarov et al., 2016, Hall et al., 2014, Yamamoto et al., 2013-, Hong et al., 2009, Iovino et al., 2009, Stork et al., 2008, Tonning et al., 2005)
      Name Synonyms
      Megatrachea
      (Lim et al., 2019, Yeh et al., 2018, Leiserson and Keshishian, 2011, Rodrigues et al., 2011, Laprise et al., 2010, Nelson et al., 2010, Harder et al., 2008)
      Pickel
      (Rice et al., 2021)
      megatrachea
      (Stork et al., 2008, Furuse and Tsukita, 2006, Luschnig et al., 2006, Anderson et al., 2004, Wu and Beitel, 2004, Paul et al., 2003, Paul et al., 2003, Beitel and Krasnow, 2000)
      pickel
      (Graves et al., 2020, Jaspers et al., 2012, Degelmann, 1993)
      Secondary FlyBase IDs
      • FBgn0001369
      • FBgn0025384
      • FBgn0027323
      • FBgn0027333
      Datasets (0)
      Study focus (0)
      Experimental Role
      Project
      Project Type
      Title
      Study result (0)
      Result
      Result Type
      Title
      References (78)