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

Gene ID: 171434, updated on 27-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
  • 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

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