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Pik3c2b phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 beta [ Rattus norvegicus (Norway rat) ]

Gene ID: 289021, updated on 11-Apr-2024

Summary

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Official Symbol
Pik3c2bprovided by RGD
Official Full Name
phosphatidylinositol-4-phosphate 3-kinase, catalytic subunit type 2 betaprovided by RGD
Primary source
RGD:1306541
See related
Ensembl:ENSRNOG00000029938 AllianceGenome:RGD:1306541
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable 1-phosphatidylinositol-3-kinase activity; 1-phosphatidylinositol-4-phosphate 3-kinase activity; and lipid kinase activity. Predicted to be involved in cell migration; phosphatidylinositol 3-kinase signaling; and phosphatidylinositol-3-phosphate biosynthetic process. Predicted to act upstream of or within autophagosome organization; cellular response to starvation; and protein kinase B signaling. Predicted to be located in cytosol; endocytic vesicle; and nucleoplasm. Predicted to be part of phosphatidylinositol 3-kinase complex. Predicted to be active in cytoplasm and plasma membrane. Orthologous to human PIK3C2B (phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 beta). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Heart (RPKM 69.9), Muscle (RPKM 58.1) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
13q13
Exon count:
35
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (47046866..47107733)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (44494673..44555663)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (49848939..49909404)

Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene MDM4 regulator of p53 Neighboring gene transfer RNA lysine (anticodon UUU) 7 Neighboring gene transfer RNA lysine (anticodon UUU) 8 Neighboring gene protein phosphatase 1, regulatory subunit 15B Neighboring gene pleckstrin homology domain containing A6

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Involvement of the autophagic pathway in the progression of AMD-like retinopathy in senescence-accelerated OXYS rats. Kozhevnikova OS, et al. Biogerontology, 2018 Jul. PMID 29492791
  2. Activation of phosphoinositide 3-kinase C2 beta in the nuclear matrix during compensatory liver growth. Sindić A, et al. Adv Enzyme Regul, 2006. PMID 16857245
  3. Regulation of neuron survival through an intersectin-phosphoinositide 3'-kinase C2beta-AKT pathway. Das M, et al. Mol Cell Biol, 2007 Nov. PMID 17875942, Free PMC Article
  4. Regulation of mammalian autophagy by class II and III PI 3-kinases through PI3P synthesis. Devereaux K, et al. PLoS One, 2013. PMID 24098492, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Missense single-nucleotide polymorphism in the Pik3c2b gene associated with autophagy regulation in in the progression of Age-related macular degeneration was found.
    Title: Involvement of the autophagic pathway in the progression of AMD-like retinopathy in senescence-accelerated OXYS rats.
  2. Activated during compensatory liver growth, which clearly demonstrates that different class II PI3K enzymes have different subnuclear localization.
    Title: Activation of phosphoinositide 3-kinase C2 beta in the nuclear matrix during compensatory liver growth.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables 1-phosphatidylinositol-3-kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables 1-phosphatidylinositol-3-kinase activity ISO
Inferred from Sequence Orthology
more info
  
enables 1-phosphatidylinositol-4-phosphate 3-kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables 1-phosphatidylinositol-4-phosphate 3-kinase activity ISO
Inferred from Sequence Orthology
more info
  
enables lipid kinase activity ISO
Inferred from Sequence Orthology
more info
  
enables phosphatidylinositol binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within autophagosome organization ISO
Inferred from Sequence Orthology
more info
  
involved_in cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within cellular response to starvation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within macroautophagy ISO
Inferred from Sequence Orthology
more info
  
involved_in phosphatidylinositol 3-kinase/protein kinase B signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within phosphatidylinositol 3-kinase/protein kinase B signal transduction ISO
Inferred from Sequence Orthology
more info
  
involved_in phosphatidylinositol-3-phosphate biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within phosphatidylinositol-3-phosphate biosynthetic process ISO
Inferred from Sequence Orthology
more info
  
involved_in phosphatidylinositol-mediated signaling IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in endocytic vesicle ISO
Inferred from Sequence Orthology
more info
  
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
part_of phosphatidylinositol 3-kinase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit beta
Names
nuclear cap binding protein subunit 2
phosphoinositide-3-kinase, class 2, beta polypeptide
NP_001099421.1
XP_006249816.1
XP_006249818.1
XP_063128143.1
XP_063128144.1
XP_063128145.1

NCBI Reference Sequences (RefSeq)

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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_001105951.1 → NP_001099421.1  phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit beta

    See identical proteins and their annotated locations for NP_001099421.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473958
    UniProtKB/TrEMBL
    A6IC68, D3ZVF3
    Related
    ENSRNOP00000051488.3, ENSRNOT00000042125.5
    Conserved Domains (7) summary
    cd00895
    Location:974 → 1327
    PI3Kc_C2_beta; Catalytic domain of Class II Phosphoinositide 3-kinase beta
    cd07290
    Location:1356 → 1464
    PX_PI3K_C2_beta; The phosphoinositide binding Phox Homology Domain of the Beta Isoform of Class II Phosphoinositide 3-Kinases
    cd04012
    Location:609 → 781
    C2A_PI3K_class_II; C2 domain first repeat present in class II phosphatidylinositol 3-kinases (PI3Ks)
    cd08381
    Location:1492 → 1614
    C2B_PI3K_class_II; C2 domain second repeat present in class II phosphatidylinositol 3-kinases (PI3Ks)
    cd00869
    Location:800 → 968
    PI3Ka_II; Phosphoinositide 3-kinase (PI3K) class II, accessory domain (PIK domain); PIK domain is conserved in all PI3 and PI4-kinases. Its role is unclear but it has been suggested to be involved in substrate presentation. In general, class II PI3-kinases ...
    pfam00794
    Location:363 → 465
    PI3K_rbd; PI3-kinase family, ras-binding domain
    pfam13646
    Location:882 → 965
    HEAT_2; HEAT repeats

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_086031.1 Reference GRCr8

    Range
    47046866..47107733
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063272074.1 → XP_063128144.1  phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit beta isoform X1

  2. XM_063272075.1 → XP_063128145.1  phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit beta isoform X3

  3. XM_063272073.1 → XP_063128143.1  phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit beta isoform X1

  4. XM_006249754.5 → XP_006249816.1  phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit beta isoform X2

    See identical proteins and their annotated locations for XP_006249816.1

    UniProtKB/TrEMBL
    A0A0G2K1Q0
    Related
    ENSRNOP00000071933.2
    Conserved Domains (6) summary
    cd00895
    Location:986 → 1339
    PI3Kc_C2_beta; Catalytic domain of Class II Phosphoinositide 3-kinase beta
    cd07290
    Location:1368 → 1476
    PX_PI3K_C2_beta; The phosphoinositide binding Phox Homology Domain of the Beta Isoform of Class II Phosphoinositide 3-Kinases
    cd04012
    Location:621 → 793
    C2A_PI3K_class_II; C2 domain first repeat present in class II phosphatidylinositol 3-kinases (PI3Ks)
    cd08381
    Location:1504 → 1626
    C2B_PI3K_class_II; C2 domain second repeat present in class II phosphatidylinositol 3-kinases (PI3Ks)
    cd00869
    Location:812 → 980
    PI3Ka_II; Phosphoinositide 3-kinase (PI3K) class II, accessory domain (PIK domain); PIK domain is conserved in all PI3 and PI4-kinases. Its role is unclear but it has been suggested to be involved in substrate presentation. In general, class II PI3-kinases ...
    pfam00794
    Location:363 → 465
    PI3K_rbd; PI3-kinase family, ras-binding domain

  5. XM_006249756.5 → XP_006249818.1  phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit beta isoform X4

    UniProtKB/TrEMBL
    A0A0G2K1Q0
    Conserved Domains (7) summary
    cd00895
    Location:765 → 1118
    PI3Kc_C2_beta; Catalytic domain of Class II Phosphoinositide 3-kinase beta
    cd07290
    Location:1147 → 1255
    PX_PI3K_C2_beta; The phosphoinositide binding Phox Homology Domain of the Beta Isoform of Class II Phosphoinositide 3-Kinases
    cd04012
    Location:400 → 572
    C2A_PI3K_class_II; C2 domain first repeat present in class II phosphatidylinositol 3-kinases (PI3Ks)
    cd08381
    Location:1283 → 1405
    C2B_PI3K_class_II; C2 domain second repeat present in class II phosphatidylinositol 3-kinases (PI3Ks)
    cd00869
    Location:591 → 759
    PI3Ka_II; Phosphoinositide 3-kinase (PI3K) class II, accessory domain (PIK domain); PIK domain is conserved in all PI3 and PI4-kinases. Its role is unclear but it has been suggested to be involved in substrate presentation. In general, class II PI3-kinases ...
    pfam00794
    Location:142 → 244
    PI3K_rbd; PI3-kinase family, ras-binding domain
    pfam13646
    Location:673 → 756
    HEAT_2; HEAT repeats
Nucleotide Protein Strain
Heading Accession and Version

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