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Pop2 Pop2 [ Drosophila melanogaster (fruit fly) ]

Gene ID: 39366, updated on 9-Dec-2024

Summary

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Official Symbol
Pop2provided by FlyBase
Official Full Name
Pop2provided by FlyBase
Primary source
FLYBASE:FBgn0036239
Locus tag
Dmel_CG5684
See related
AllianceGenome:FB:FBgn0036239
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Drosophila melanogaster
Lineage
Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as
Caf1; CAF1; CG5684; CNOT7; Dmel\CG5684; pop2; POP2
Summary
Enables poly(A)-specific ribonuclease activity. Involved in negative regulation of translation and nuclear-transcribed mRNA poly(A) tail shortening. Located in cytoplasm. Part of CCR4-NOT complex. Is expressed in several structures, including adult brain cell body rind; adult head; embryonic/larval midgut primordium; ganglia; and head epidermis primordium. Used to study heart disease. Orthologous to several human genes including CNOT7 (CCR4-NOT transcription complex subunit 7). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs
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Genomic context

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See Pop2 in Genome Data Viewer
Location:
68F1-68F1; 3-38 cM
Exon count:
5
Annotation release Status Assembly Chr Location
Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) 3L NT_037436.4 (11998398..12002915, complement)
Release 5.57 previous assembly Release 5 (GCF_000001215.2) 3L NT_037436.3 (11991498..11996015, complement)

Chromosome 3L - NT_037436.4Genomic Context describing neighboring genes Neighboring gene uncharacterized protein Neighboring gene Grip163 Neighboring gene viral IAP-associated factor Neighboring gene uncharacterized protein Neighboring gene rolling pebbles Neighboring gene long non-coding RNA:CR43994

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Inhibiting transcription in cultured metazoan cells with actinomycin D to monitor mRNA turnover. Lai WS, et al. Methods, 2019 Feb 15. PMID 30625384, Free PMC Article
  2. Identification of transcriptional and metabolic programs related to mammalian cell size. Miettinen TP, et al. Curr Biol, 2014 Mar 17. PMID 24613310, Free PMC Article
  3. CCR4 and CAF1 deadenylases have an intrinsic activity to remove the post-poly(A) sequence. Niinuma S, et al. RNA, 2016 Oct. PMID 27484313, Free PMC Article
  4. Regulation of the Drosophila transcriptome by Pumilio and the CCR4-NOT deadenylase complex. Haugen RJ, et al. RNA, 2024 Jun 17. PMID 38627019,
  5. Defining an evolutionarily conserved role of GW182 in circular RNA degradation. Jia R, et al. Cell Discov, 2019. PMID 31636958, Free PMC Article

See all (93) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by FlyBase

Function Evidence Code Pubs
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables poly(A)-specific ribonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables poly(A)-specific ribonuclease activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables poly(A)-specific ribonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables poly(A)-specific ribonuclease activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in mRNA catabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of translation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in nuclear-transcribed mRNA poly(A) tail shortening IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of CCR4-NOT complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of CCR4-NOT complex IEA
Inferred from Electronic Annotation
more info
  
part_of CCR4-NOT complex IPI
Inferred from Physical Interaction
more info
 PubMed 
part_of CCR4-NOT core complex IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in P-body IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytosol HDA PubMed 

General protein information

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Preferred Names
Pop2
Names
CG5684-PA
CG5684-PB
CG5684-PC
CG5684-PD
CG5684-PE
CG5684-PG
Pop2-PA
Pop2-PB
Pop2-PC
Pop2-PD
Pop2-PE
Pop2-PG
NP_001163429.1
NP_001287041.1
NP_001369048.1
NP_648538.1
NP_729775.1
NP_729776.1

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

  1. NT_037436.4 Reference assembly

    Range
    11998398..12002915 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001382181.1 → NP_001369048.1  Pop2, isoform G [Drosophila melanogaster]

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A6M3Q6V5, Q8IGD6
    Conserved Domains (1) summary
    cl23804
    Location:25 → 291
    CAF1; CAF1 family ribonuclease

  2. NM_140281.3 → NP_648538.1  Pop2, isoform A [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_648538.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q8IGD6, Q961U5, Q9VTS4
    Related
    FBpp0075790
    Conserved Domains (1) summary
    cl23804
    Location:25 → 291
    CAF1; CAF1 family ribonuclease

  3. NM_168485.2 → NP_729776.1  Pop2, isoform C [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_729776.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q8I0I5, Q8IGD6
    Related
    FBpp0075792
    Conserved Domains (1) summary
    cl23804
    Location:21 → 287
    CAF1; CAF1 family ribonuclease

  4. NM_168484.2 → NP_729775.1  Pop2, isoform B [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_729775.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q8I0I5, Q8IGD6
    Related
    FBpp0075791
    Conserved Domains (1) summary
    cl23804
    Location:21 → 287
    CAF1; CAF1 family ribonuclease

  5. NM_001300112.1 → NP_001287041.1  Pop2, isoform E [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_001287041.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    X2JCC3
    Conserved Domains (1) summary
    cl23804
    Location:25 → 257
    CAF1; CAF1 family ribonuclease

  6. NM_001169958.3 → NP_001163429.1  Pop2, isoform D [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_001163429.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    E1JHY7
    Conserved Domains (1) summary
    cl23804
    Location:21 → 253
    CAF1; CAF1 family ribonuclease
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A0A6M3Q6V5 A0A6M3Q6V5
E1JHY7 E1JHY7
Q8I0I5 Q8I0I5
Q8IGD6 Q8IGD6
Q8MR41 Q8MR41
Q9VTS4 Q9VTS4
X2JCC3 X2JCC3

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