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    Phldb1 pleckstrin homology-like domain, family B, member 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 171434, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Phldb1provided by RGD
    Official Full Name
    pleckstrin homology-like domain, family B, member 1provided by RGD
    Primary source
    RGD:620878
    See related
    EnsemblRapid:ENSRNOG00000026985 AllianceGenome:RGD:620878
    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
    Ll5
    Summary
    Predicted to be involved in regulation of embryonic development; regulation of epithelial to mesenchymal transition; and regulation of microtubule cytoskeleton organization. Predicted to be located in several cellular components, including cytosol; intercellular bridge; and plasma membrane. Predicted to be active in basal cortex. Human ortholog(s) of this gene implicated in osteogenesis imperfecta. Orthologous to human PHLDB1 (pleckstrin homology like domain family B member 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Heart (RPKM 361.3), Brain (RPKM 144.8) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Phldb1 in Genome Data Viewer
    Location:
    8q22
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (53900338..53948325, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (45003543..45051541, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (48997189..49045176, complement)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene DEAD-box helicase 6 Neighboring gene ribosomal protein L35A like 11 Neighboring gene uncharacterized LOC120094134 Neighboring gene trehalase Neighboring gene uncharacterized LOC134480161 Neighboring gene archain 1 Neighboring gene intraflagellar transport 46 Neighboring gene transmembrane protein 25

    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 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. Cloning of LL5, a novel protein encoding cDNA from a rat pituitary library. Levi L, et al. Biochim Biophys Acta, 1993 Nov 16. PMID 8241284
    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. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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 positive regulation of basement membrane assembly involved in embryonic body morphogenesis IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of epithelial to mesenchymal transition ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of gastrulation IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in basal cortex 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 intercellular bridge IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intercellular bridge ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intracellular membrane-bounded organelle 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
    		  

    General protein information

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    Preferred Names
    pleckstrin homology-like domain family B member 1
    Names
    protein LL5-alpha

    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_001191578.3 → NP_001178507.1  pleckstrin homology-like domain family B member 1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A0A8I6A9F1, D3ZNS1
      Related
      ENSRNOP00000046235.4, ENSRNOT00000047303.6
      Conserved Domains (7) summary
      cd14673
      Location:1259 → 1374
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      pfam00169
      Location:1262 → 1369
      PH; PH domain
      pfam00498
      Location:64 → 124
      FHA; FHA domain
      pfam10846
      Location:242 → 540
      DUF2722; Protein of unknown function (DUF2722)
      pfam14988
      Location:730 → 935
      DUF4515; Domain of unknown function (DUF4515)
      cd16269
      Location:777 → 790
      GBP_C; coiled coil [structural motif]
      cl20817
      Location:718 → 805
      GBP_C; Guanylate-binding protein, C-terminal domain

    2. NM_001400943.2 → NP_001387872.1  pleckstrin homology-like domain family B member 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A0A8I6AMV1

    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_086026.1 Reference GRCr8

      Range
      53900338..53948325 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063264879.1 → XP_063120949.1  pleckstrin homology-like domain family B member 1 isoform X44

      Related
      ENSRNOP00000091125.1, ENSRNOT00000100408.2

    2. XM_063264878.1 → XP_063120948.1  pleckstrin homology-like domain family B member 1 isoform X43

      Related
      ENSRNOP00000101860.1, ENSRNOT00000149118.1

    3. XM_063264877.1 → XP_063120947.1  pleckstrin homology-like domain family B member 1 isoform X42

    4. XM_039080760.2 → XP_038936688.1  pleckstrin homology-like domain family B member 1 isoform X5

      UniProtKB/TrEMBL
      A0A8I6A9F1
      Conserved Domains (4) summary
      PHA03307
      Location:143 → 547
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:712 → 944
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1467 → 1582
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      pfam00498
      Location:64 → 124
      FHA; FHA domain

    5. XM_063264880.1 → XP_063120950.1  pleckstrin homology-like domain family B member 1 isoform X44

    6. XM_063264876.1 → XP_063120946.1  pleckstrin homology-like domain family B member 1 isoform X41

    7. XM_063264875.1 → XP_063120945.1  pleckstrin homology-like domain family B member 1 isoform X40

      Related
      ENSRNOP00000069330.1, ENSRNOT00000088034.3

    8. XM_063264872.1 → XP_063120942.1  pleckstrin homology-like domain family B member 1 isoform X36

    9. XM_063264868.1 → XP_063120938.1  pleckstrin homology-like domain family B member 1 isoform X32

    10. XM_063264870.1 → XP_063120940.1  pleckstrin homology-like domain family B member 1 isoform X34

    11. XM_063264863.1 → XP_063120933.1  pleckstrin homology-like domain family B member 1 isoform X27

    12. XM_063264860.1 → XP_063120930.1  pleckstrin homology-like domain family B member 1 isoform X24

    13. XM_063264859.1 → XP_063120929.1  pleckstrin homology-like domain family B member 1 isoform X23

    14. XM_063264854.1 → XP_063120924.1  pleckstrin homology-like domain family B member 1 isoform X19

      Related
      ENSRNOP00000087775.2, ENSRNOT00000114831.2

    15. XM_063264864.1 → XP_063120934.1  pleckstrin homology-like domain family B member 1 isoform X28

      Related
      ENSRNOP00000096080.2, ENSRNOT00000096683.2

    16. XM_063264862.1 → XP_063120932.1  pleckstrin homology-like domain family B member 1 isoform X26

    17. XM_063264861.1 → XP_063120931.1  pleckstrin homology-like domain family B member 1 isoform X25

      Related
      ENSRNOP00000109174.1, ENSRNOT00000170158.1

    18. XM_063264858.1 → XP_063120928.1  pleckstrin homology-like domain family B member 1 isoform X22

    19. XM_063264852.1 → XP_063120922.1  pleckstrin homology-like domain family B member 1 isoform X17

    20. XM_063264850.1 → XP_063120920.1  pleckstrin homology-like domain family B member 1 isoform X15

    21. XM_063264849.1 → XP_063120919.1  pleckstrin homology-like domain family B member 1 isoform X14

    22. XM_063264847.1 → XP_063120917.1  pleckstrin homology-like domain family B member 1 isoform X12

    23. XM_063264845.1 → XP_063120915.1  pleckstrin homology-like domain family B member 1 isoform X10

    24. XM_063264844.1 → XP_063120914.1  pleckstrin homology-like domain family B member 1 isoform X9

    25. XM_063264874.1 → XP_063120944.1  pleckstrin homology-like domain family B member 1 isoform X39

    26. XM_063264873.1 → XP_063120943.1  pleckstrin homology-like domain family B member 1 isoform X38

      Related
      ENSRNOP00000068824.3, ENSRNOT00000078816.3

    27. XM_063264869.1 → XP_063120939.1  pleckstrin homology-like domain family B member 1 isoform X33

    28. XM_039080773.1 → XP_038936701.1  pleckstrin homology-like domain family B member 1 isoform X37

      UniProtKB/TrEMBL
      A0A0G2JV32
      Conserved Domains (4) summary
      PHA03307
      Location:143 → 547
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:712 → 944
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1270 → 1374
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      pfam00498
      Location:64 → 124
      FHA; FHA domain

    29. XM_063264867.1 → XP_063120937.1  pleckstrin homology-like domain family B member 1 isoform X31

    30. XM_063264866.1 → XP_063120936.1  pleckstrin homology-like domain family B member 1 isoform X30

    31. XM_063264865.1 → XP_063120935.1  pleckstrin homology-like domain family B member 1 isoform X29

    32. XM_063264855.1 → XP_063120925.1  pleckstrin homology-like domain family B member 1 isoform X20

    33. XM_063264851.1 → XP_063120921.1  pleckstrin homology-like domain family B member 1 isoform X16

    34. XM_063264846.1 → XP_063120916.1  pleckstrin homology-like domain family B member 1 isoform X11

    35. XM_063264853.1 → XP_063120923.1  pleckstrin homology-like domain family B member 1 isoform X18

    36. XM_063264848.1 → XP_063120918.1  pleckstrin homology-like domain family B member 1 isoform X13

      Related
      ENSRNOP00000094780.2, ENSRNOT00000103833.2

    37. XM_063264842.1 → XP_063120912.1  pleckstrin homology-like domain family B member 1 isoform X7

    38. XM_063264843.1 → XP_063120913.1  pleckstrin homology-like domain family B member 1 isoform X8

    39. XM_063264841.1 → XP_063120911.1  pleckstrin homology-like domain family B member 1 isoform X6

    40. XM_063264840.1 → XP_063120910.1  pleckstrin homology-like domain family B member 1 isoform X3

    41. XM_039080764.1 → XP_038936692.1  pleckstrin homology-like domain family B member 1 isoform X4

      UniProtKB/TrEMBL
      A0A8I6A9F1
      Conserved Domains (4) summary
      PHA03307
      Location:143 → 547
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:712 → 944
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1456 → 1560
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      pfam00498
      Location:64 → 124
      FHA; FHA domain

    42. XM_039080762.1 → XP_038936690.1  pleckstrin homology-like domain family B member 1 isoform X2

      UniProtKB/TrEMBL
      A0A8I6A9F1
      Conserved Domains (4) summary
      PHA03307
      Location:143 → 547
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:712 → 944
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cd14673
      Location:1456 → 1571
      PH_PHLDB1_2; Pleckstrin homology-like domain-containing family B member 2 pleckstrin homology (PH) domain
      pfam00498
      Location:64 → 124
      FHA; FHA domain

    43. XM_063264839.1 → XP_063120909.1  pleckstrin homology-like domain family B member 1 isoform X1

    44. XM_063264856.1 → XP_063120926.1  pleckstrin homology-like domain family B member 1 isoform X21

    45. XM_063264857.1 → XP_063120927.1  pleckstrin homology-like domain family B member 1 isoform X21

    46. XM_063264871.1 → XP_063120941.1  pleckstrin homology-like domain family B member 1 isoform X35

    47. XM_063264881.1 → XP_063120951.1  pleckstrin homology-like domain family B member 1 isoform X45

    48. XM_063264882.1 → XP_063120952.1  pleckstrin homology-like domain family B member 1 isoform X46

      UniProtKB/TrEMBL
      A6J408

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_134397.1: Suppressed sequence

      Description
      NM_134397.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q63312.2 GenPept UniProtKB/Swiss-Prot:Q63312

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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