U.S. flag

An official website of the United States government

Links from GEO Profiles

    • Showing Current items.

    Pclo piccolo (presynaptic cytomatrix protein) [ Rattus norvegicus (Norway rat) ]

    Gene ID: 56768, updated on 9-Dec-2024

    Summary

    Symbol
    Pcloprovided by RGD
    Full Name
    piccolo (presynaptic cytomatrix protein)provided by RGD
    Primary source
    RGD:69406
    See related
    EnsemblRapid:ENSRNOG00000005726 AllianceGenome:RGD:69406
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    aczonin
    Summary
    Enables calcium ion binding activity; calcium-dependent phospholipid binding activity; and transcription corepressor binding activity. Involved in several processes, including positive regulation of synaptic vesicle recycling; presynaptic active zone assembly; and regulation of endosome size. Located in several cellular components, including cytoskeleton of presynaptic active zone; distal axon; and rod spherule. Is active in glutamatergic synapse; parallel fiber to Purkinje cell synapse; and presynaptic active zone cytoplasmic component. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 3. Orthologous to human PCLO (piccolo presynaptic cytomatrix protein). [provided by Alliance of Genome Resources, Dec 2024]
    Annotation information
    Note: This gene aligns across a gap in the Rnor_6.0 reference genome assembly, and therefore, the 5' end of this gene was annotated on NW_007905776.1 and the 3' end was annotated on NW_007905775.1 in NCBI's Rattus norvegicus Annotation Release 105. [15 Jun 2015]
    Expression
    Biased expression in Brain (RPKM 203.2), Adrenal (RPKM 24.4) and 1 other tissue See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Pclo in Genome Data Viewer
    Location:
    4q12
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (20646604..21005171, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (19691439..20050015, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (16454904..17058921, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene pleiotropic regulator 1, pseudogene 1 Neighboring gene small nucleolar RNA SNORA48 Neighboring gene uncharacterized LOC134486715 Neighboring gene uncharacterized LOC108350655

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding PubMed 
    enables calcium-dependent phospholipid binding PubMed 
    enables metal ion binding  
    enables profilin binding  
    enables profilin binding  
    enables profilin binding  
    enables protein binding PubMed 
    enables structural constituent of presynaptic active zone  
    enables structural constituent of presynaptic active zone  
    enables structural constituent of presynaptic active zone  
    enables transcription corepressor binding PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within cytoskeleton organization  
    involved_in cytoskeleton organization  
    involved_in insulin secretion  
    acts_upstream_of_or_within insulin secretion  
    involved_in maintenance of presynaptic active zone structure  
    involved_in modulation of excitatory postsynaptic potential PubMed 
    involved_in positive regulation of synaptic vesicle recycling PubMed 
    involved_in presynaptic actin cytoskeleton organization  
    involved_in presynaptic actin cytoskeleton organization  
    involved_in presynaptic active zone assembly  
    involved_in presynaptic active zone assembly PubMed 
    involved_in protein localization to synapse  
    involved_in protein localization to synapse  
    involved_in protein localization to synapse  
    involved_in regulation of endosome size PubMed 
    involved_in regulation of exocytosis  
    acts_upstream_of_or_within regulation of exocytosis  
    involved_in regulation of ubiquitin protein ligase activity PubMed 
    involved_in synapse organization PubMed 
    involved_in synaptic vesicle clustering  
    involved_in synaptic vesicle clustering  
    involved_in synaptic vesicle targeting PubMed 
    Items 1 - 20 of 30
    Component Evidence Code Pubs
    is_active_in GABA-ergic synapse  
    located_in Golgi-associated vesicle PubMed 
    is_active_in axon  
    located_in axon PubMed 
    located_in cell projection  
    located_in cone cell pedicle PubMed 
    is_active_in cytoskeleton of presynaptic active zone  
    located_in cytoskeleton of presynaptic active zone PubMed 
    located_in dendrite PubMed 
    is_active_in glutamatergic synapse  
    is_active_in glutamatergic synapse PubMed 
    located_in growth cone PubMed 
    located_in inhibitory synapse PubMed 
    located_in membrane  
    located_in neuromuscular junction PubMed 
    located_in neuronal cell body PubMed 
    located_in organelle  
    is_active_in parallel fiber to Purkinje cell synapse PubMed 
    located_in perinuclear region of cytoplasm PubMed 
    located_in postsynaptic density  
    located_in postsynaptic density  
    located_in presynaptic active zone PubMed 
    located_in presynaptic active zone  
    is_active_in presynaptic active zone cytoplasmic component PubMed 
    located_in ribbon synapse PubMed 
    located_in rod spherule PubMed 
    located_in synapse PubMed 
    located_in synapse  
    located_in terminal bouton PubMed 
    located_in trans-Golgi network PubMed 
    Items 1 - 20 of 30

    General protein information

    Preferred Names
    protein piccolo
    Names
    multidomain presynaptic cytomatrix protein Piccolo
    presynaptic cytomatrix protein
    protein piccolo-like

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001110797.2NP_001104267.2  protein piccolo isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks several exons and its 3' terminal exon extends past a splice site that is used in variant 1. The encoded isoform (2) has a shorter and distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      F1M7V4
      Conserved Domains (8) summary
      PTZ00121
      Location:10801637
      PTZ00121; MAEBL; Provisional
      cd04031
      Location:46394771
      C2A_RIM1alpha; C2 domain first repeat contained in Rab3-interacting molecule (RIM) proteins
      PHA03247
      Location:64516
      PHA03247; large tegument protein UL36; Provisional
      PRK01741
      Location:37893931
      PRK01741; cell division protein ZipA; Provisional
      PRK10263
      Location:33673911
      PRK10263; DNA translocase FtsK; Provisional
      cd00992
      Location:44424533
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd15774
      Location:522583
      FYVE1_PCLO; FYVE-related domain 1 found in protein piccolo
      cd15776
      Location:10111072
      FYVE2_PCLO; FYVE-related domain 2 found in protein piccolo
    2. NM_020098.2NP_064483.2  protein piccolo isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/Swiss-Prot
      Q9JKS6, Q9JLT1
      UniProtKB/TrEMBL
      D3Z9C7
      Related
      ENSRNOP00000008637.8, ENSRNOT00000008637.10
      Conserved Domains (9) summary
      PTZ00121
      Location:10801637
      PTZ00121; MAEBL; Provisional
      cd04031
      Location:46394771
      C2A_RIM1alpha; C2 domain first repeat contained in Rab3-interacting molecule (RIM) proteins
      PHA03247
      Location:64516
      PHA03247; large tegument protein UL36; Provisional
      PRK01741
      Location:37893931
      PRK01741; cell division protein ZipA; Provisional
      PRK10263
      Location:33673911
      PRK10263; DNA translocase FtsK; Provisional
      cd00992
      Location:44424533
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd15774
      Location:522583
      FYVE1_PCLO; FYVE-related domain 1 found in protein piccolo
      cd15776
      Location:10111072
      FYVE2_PCLO; FYVE-related domain 2 found in protein piccolo
      cl14603
      Location:49525077
      C2; C2 domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086022.1 Reference GRCr8

      Range
      20646604..21005171 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039108295.2XP_038964223.1  protein piccolo isoform X8

      UniProtKB/Swiss-Prot
      Q9JKS6, Q9JLT1
      Conserved Domains (8) summary
      PTZ00121
      Location:10801637
      PTZ00121; MAEBL; Provisional
      cd04031
      Location:44944626
      C2A_RIM1alpha; C2 domain first repeat contained in Rab3-interacting molecule (RIM) proteins
      PHA03247
      Location:64516
      PHA03247; large tegument protein UL36; Provisional
      PRK01741
      Location:36303772
      PRK01741; cell division protein ZipA; Provisional
      cd00992
      Location:42964387
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd15774
      Location:522583
      FYVE1_PCLO; FYVE-related domain 1 found in protein piccolo
      pfam00168
      Location:48484957
      C2; C2 domain
      pfam05715
      Location:10091067
      zf-piccolo; Piccolo Zn-finger
    2. XM_063286636.1XP_063142706.1  protein piccolo isoform X3

      UniProtKB/Swiss-Prot
      Q9JKS6, Q9JLT1
    3. XM_039108291.2XP_038964219.1  protein piccolo isoform X6

      UniProtKB/Swiss-Prot
      Q9JKS6, Q9JLT1
      Conserved Domains (9) summary
      PTZ00121
      Location:10801637
      PTZ00121; MAEBL; Provisional
      cd04031
      Location:46404772
      C2A_RIM1alpha; C2 domain first repeat contained in Rab3-interacting molecule (RIM) proteins
      PHA03247
      Location:64516
      PHA03247; large tegument protein UL36; Provisional
      PRK01741
      Location:37893931
      PRK01741; cell division protein ZipA; Provisional
      PRK10263
      Location:33673911
      PRK10263; DNA translocase FtsK; Provisional
      cd00992
      Location:44424533
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd15774
      Location:522583
      FYVE1_PCLO; FYVE-related domain 1 found in protein piccolo
      pfam00168
      Location:49695078
      C2; C2 domain
      pfam05715
      Location:10091067
      zf-piccolo; Piccolo Zn-finger
    4. XM_063286639.1XP_063142709.1  protein piccolo isoform X5

      UniProtKB/Swiss-Prot
      Q9JKS6, Q9JLT1
    5. XM_063286638.1XP_063142708.1  protein piccolo isoform X4

      UniProtKB/Swiss-Prot
      Q9JKS6, Q9JLT1
    6. XM_039108290.2XP_038964218.1  protein piccolo isoform X2

      UniProtKB/Swiss-Prot
      Q9JKS6, Q9JLT1
      Related
      ENSRNOP00000007608.9, ENSRNOT00000007608.9
      Conserved Domains (9) summary
      PTZ00121
      Location:10801637
      PTZ00121; MAEBL; Provisional
      cd04031
      Location:46524784
      C2A_RIM1alpha; C2 domain first repeat contained in Rab3-interacting molecule (RIM) proteins
      PHA03247
      Location:64516
      PHA03247; large tegument protein UL36; Provisional
      PRK01741
      Location:37893931
      PRK01741; cell division protein ZipA; Provisional
      PRK10263
      Location:33673911
      PRK10263; DNA translocase FtsK; Provisional
      cd00992
      Location:44554546
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd15774
      Location:522583
      FYVE1_PCLO; FYVE-related domain 1 found in protein piccolo
      pfam00168
      Location:50065115
      C2; C2 domain
      pfam05715
      Location:10091067
      zf-piccolo; Piccolo Zn-finger
    7. XM_039108294.2XP_038964222.1  protein piccolo isoform X7

      UniProtKB/TrEMBL
      F1M7V4
      Conserved Domains (9) summary
      PTZ00121
      Location:10801637
      PTZ00121; MAEBL; Provisional
      cd04031
      Location:46534785
      C2A_RIM1alpha; C2 domain first repeat contained in Rab3-interacting molecule (RIM) proteins
      PHA03247
      Location:64516
      PHA03247; large tegument protein UL36; Provisional
      PRK01741
      Location:37893931
      PRK01741; cell division protein ZipA; Provisional
      PRK10263
      Location:33673911
      PRK10263; DNA translocase FtsK; Provisional
      cd00992
      Location:44554546
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd15774
      Location:522583
      FYVE1_PCLO; FYVE-related domain 1 found in protein piccolo
      pfam00168
      Location:49125021
      C2; C2 domain
      pfam05715
      Location:10091067
      zf-piccolo; Piccolo Zn-finger
    8. XM_039108289.2XP_038964217.1  protein piccolo isoform X1

      UniProtKB/Swiss-Prot
      Q9JKS6, Q9JLT1
      Conserved Domains (9) summary
      PTZ00121
      Location:10801637
      PTZ00121; MAEBL; Provisional
      cd04031
      Location:46534785
      C2A_RIM1alpha; C2 domain first repeat contained in Rab3-interacting molecule (RIM) proteins
      PHA03247
      Location:64516
      PHA03247; large tegument protein UL36; Provisional
      PRK01741
      Location:37893931
      PRK01741; cell division protein ZipA; Provisional
      PRK10263
      Location:33673911
      PRK10263; DNA translocase FtsK; Provisional
      cd00992
      Location:44554546
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd15774
      Location:522583
      FYVE1_PCLO; FYVE-related domain 1 found in protein piccolo
      pfam00168
      Location:50075116
      C2; C2 domain
      pfam05715
      Location:10091067
      zf-piccolo; Piccolo Zn-finger
    9. XM_063286640.1XP_063142710.1  protein piccolo isoform X9

      UniProtKB/TrEMBL
      F1M7V4
    10. XM_063286641.1XP_063142711.1  protein piccolo isoform X10

      UniProtKB/TrEMBL
      F1M7V4
    11. XM_063286642.1XP_063142712.1  protein piccolo isoform X10

      UniProtKB/TrEMBL
      F1M7V4
    External link. Please review our privacy policy.