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    Phldb2 pleckstrin homology-like domain, family B, member 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 685611, updated on 9-Dec-2024

    Summary

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    Symbol
    Phldb2provided by RGD
    Full Name
    pleckstrin homology-like domain, family B, member 2provided by RGD
    Primary source
    RGD:1591402
    See related
    EnsemblRapid:ENSRNOG00000002171 AllianceGenome:RGD:1591402
    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
    Summary
    Predicted to be involved in several processes, including negative regulation of focal adhesion assembly; regulation of cytoskeleton organization; and regulation of embryonic development. Predicted to be located in several cellular components, including basal cortex; cytoskeleton; and focal adhesion. Orthologous to human PHLDB2 (pleckstrin homology like domain family B member 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 338.0), Lung (RPKM 150.2) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Phldb2 in Genome Data Viewer
    Location:
    11q21
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (68321738..68540724)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (54859173..55078212)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (60042879..60051229)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene CD96 molecule Neighboring gene zinc finger, BED-type containing 2, pseudogene 1 Neighboring gene phosphatidylinositol-specific phospholipase C, X domain containing 2 Neighboring gene uncharacterized LOC102552450 Neighboring gene small nucleolar RNA U13 Neighboring gene abhydrolase domain containing 10, depalmitoylase Neighboring gene transgelin 3

    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. CLASPs link focal-adhesion-associated microtubule capture to localized exocytosis and adhesion site turnover. Stehbens SJ, et al. Nat Cell Biol, 2014 Jun. PMID 24859005, Free PMC Article
    2. Epiblast integrity requires CLASP and Dystroglycan-mediated microtubule anchoring to the basal cortex. Nakaya Y, et al. J Cell Biol, 2013 Aug 19. PMID 23940118, Free PMC Article
    3. E-cadherin interactome complexity and robustness resolved by quantitative proteomics. Guo Z, et al. Sci Signal, 2014 Dec 2. PMID 25468996, Free PMC Article
    4. 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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in cell migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in establishment of cell polarity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in establishment of protein localization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in microtubule cytoskeleton organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of focal adhesion assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of stress fiber assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of wound healing, spreading of epidermal cells ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of basement membrane assembly involved in embryonic body morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of epithelial to mesenchymal transition ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of gastrulation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of microtubule cytoskeleton organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of microtubule cytoskeleton organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in basal cortex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in basal cortex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cell cortex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cell leading edge ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in focal adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intermediate filament cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intermediate filament cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in podosome ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    pleckstrin homology-like domain family B member 2; pleckstrin homology-like domain, family B, member 2

    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_001432497.1 → NP_001419426.1  pleckstrin homology-like domain, family B, member 2 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A0A8I6GM52

    2. NM_001432498.1 → NP_001419427.1  pleckstrin homology-like domain, family B, member 2 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A0A1W2Q6E5, D3ZTL3

    3. NM_001432499.1 → NP_001419428.1  pleckstrin homology-like domain, family B, member 2 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A0A1W2Q667, A0A8I6GM52

    4. NM_001432500.1 → NP_001419429.1  pleckstrin homology-like domain, family B, member 2 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A0A1W2Q667, A0A8I6GM52

    5. NM_001432501.1 → NP_001419430.1  pleckstrin homology-like domain, family B, member 2 isoform 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A0A8I6GM52

    6. NM_001432502.1 → NP_001419431.1  pleckstrin homology-like domain, family B, member 2 isoform 5

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      D3ZTL3

    7. NM_001432503.1 → NP_001419432.1  pleckstrin homology-like domain, family B, member 2 isoform 6

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A0A8I6GM52

    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_086029.1 Reference GRCr8

      Range
      68321738..68540724
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039088877.2 → XP_038944805.1  pleckstrin homology-like domain family B member 2 isoform X1

      UniProtKB/TrEMBL
      A0A8I5Y6J7
      Conserved Domains (3) summary
      COG1196
      Location:618 → 851
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1247 → 1351
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      pfam17380
      Location:1139 → 1206
      DUF5401; Family of unknown function (DUF5401)

    2. XM_039088879.2 → XP_038944807.1  pleckstrin homology-like domain family B member 2 isoform X3

      UniProtKB/TrEMBL
      A0A8I6GM52
      Conserved Domains (3) summary
      COG1196
      Location:618 → 851
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1186 → 1290
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      pfam02463
      Location:613 → 1171
      SMC_N; RecF/RecN/SMC N terminal domain

    3. XM_039088880.2 → XP_038944808.1  pleckstrin homology-like domain family B member 2 isoform X4

      UniProtKB/TrEMBL
      A0A8I6GM52
      Conserved Domains (2) summary
      COG1196
      Location:621 → 1141
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1179 → 1283
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain

    4. XM_039088882.2 → XP_038944810.1  pleckstrin homology-like domain family B member 2 isoform X5

      UniProtKB/TrEMBL
      A0A8I6GM52
      Conserved Domains (3) summary
      COG1196
      Location:618 → 851
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1163 → 1267
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      pfam17380
      Location:1055 → 1122
      DUF5401; Family of unknown function (DUF5401)

    5. XM_039088883.2 → XP_038944811.1  pleckstrin homology-like domain family B member 2 isoform X6

      UniProtKB/TrEMBL
      A0A8I6GM52
      Conserved Domains (3) summary
      COG1196
      Location:618 → 851
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1156 → 1260
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      pfam17380
      Location:1048 → 1115
      DUF5401; Family of unknown function (DUF5401)

    6. XM_039088884.2 → XP_038944812.1  pleckstrin homology-like domain family B member 2 isoform X8

      UniProtKB/TrEMBL
      D3ZTL3
      Conserved Domains (3) summary
      COG1196
      Location:618 → 851
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1138 → 1242
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      pfam17380
      Location:1030 → 1097
      DUF5401; Family of unknown function (DUF5401)

    7. XM_063270857.1 → XP_063126927.1  pleckstrin homology-like domain family B member 2 isoform X10

      Related
      ENSRNOP00000076223.2, ENSRNOT00000093174.3

    8. XM_039088888.2 → XP_038944816.1  pleckstrin homology-like domain family B member 2 isoform X13

      UniProtKB/TrEMBL
      D3ZTL3
      Related
      ENSRNOP00000102982.1, ENSRNOT00000131917.1
      Conserved Domains (3) summary
      COG1196
      Location:618 → 851
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1091 → 1195
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      TIGR02168
      Location:708 → 1056
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type

    9. XM_039088889.2 → XP_038944817.1  pleckstrin homology-like domain family B member 2 isoform X15

      UniProtKB/TrEMBL
      D3ZTL3
      Conserved Domains (3) summary
      COG1196
      Location:618 → 851
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1084 → 1188
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      TIGR02168
      Location:708 → 1049
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type

    10. XM_063270856.1 → XP_063126926.1  pleckstrin homology-like domain family B member 2 isoform X7

      UniProtKB/TrEMBL
      A0A8I6GM52

    11. XM_039088885.2 → XP_038944813.1  pleckstrin homology-like domain family B member 2 isoform X9

      UniProtKB/TrEMBL
      A0A8I6GM52
      Conserved Domains (4) summary
      TIGR00618
      Location:564 → 1111
      sbcc; exonuclease SbcC
      COG1196
      Location:616 → 808
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1136 → 1240
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      pfam17380
      Location:1028 → 1095
      DUF5401; Family of unknown function (DUF5401)

    12. XM_063270859.1 → XP_063126929.1  pleckstrin homology-like domain family B member 2 isoform X12

      UniProtKB/TrEMBL
      A0A8I6GM52

    13. XM_063270860.1 → XP_063126930.1  pleckstrin homology-like domain family B member 2 isoform X14

      UniProtKB/TrEMBL
      A0A8I6GM52
      Related
      ENSRNOP00000097614.2, ENSRNOT00000114570.2

    14. XM_063270861.1 → XP_063126931.1  pleckstrin homology-like domain family B member 2 isoform X16

      UniProtKB/TrEMBL
      D3ZTL3

    15. XM_063270858.1 → XP_063126928.1  pleckstrin homology-like domain family B member 2 isoform X11

    16. XM_039088878.2 → XP_038944806.1  pleckstrin homology-like domain family B member 2 isoform X2

      UniProtKB/TrEMBL
      A0A8I5Y6J7
      Related
      ENSRNOP00000077973.2, ENSRNOT00000086178.3
      Conserved Domains (3) summary
      COG1196
      Location:577 → 810
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1206 → 1310
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      pfam17380
      Location:1098 → 1165
      DUF5401; Family of unknown function (DUF5401)
    Nucleotide Protein Strain
    Heading Accession and Version

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