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Aliases for PHLDB3 Gene

Aliases for PHLDB3 Gene

  • Pleckstrin Homology Like Domain Family B Member 3 2 3 5
  • Pleckstrin Homology-Like Domain, Family B, Member 3 2

External Ids for PHLDB3 Gene

Previous GeneCards Identifiers for PHLDB3 Gene

  • GC19M048694
  • GC19M048677
  • GC19M043983
  • GC19M040410

Summaries for PHLDB3 Gene

GeneCards Summary for PHLDB3 Gene

PHLDB3 (Pleckstrin Homology Like Domain Family B Member 3) is a Protein Coding gene. GO annotations related to this gene include enzyme binding. An important paralog of this gene is MIR6716.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PHLDB3 Gene

Genomics for PHLDB3 Gene

Regulatory Elements for PHLDB3 Gene

Enhancers for PHLDB3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH19F043502 1.1 ENCODE 19.8 +0.6 573 3.0 HDGF PKNOX1 SIN3A ARID4B DMAP1 ZNF2 YY1 SLC30A9 SP3 SP5 ZNF575 PHLDB3 ETHE1 CEACAMP10 LOC105372414 CEACAMP1 ZNF180 SRRM5 ZNF234 ZNF155
GH19F043474 1.3 Ensembl ENCODE 15.9 +29.1 29066 3.0 PKNOX1 ATF1 SIN3A FEZF1 ZNF2 YY1 ZNF121 GLIS2 ZNF143 KLF13 ZNF575 ETHE1 PHLDB3 ZNF234 ZNF155 ZNF45 XRCC1 LYPD3
GH19F043524 1.4 FANTOM5 ENCODE 14.6 -21.7 -21692 4.3 PKNOX1 WRNIP1 ARID4B SIN3A FEZF1 ZNF2 YY1 CBX5 ZNF143 ZNF263 ZNF180 ZNF45 ZNF234 ZNF225 ZNF155 ETHE1 CEACAMP10 LOC105372414 CEACAMP1 PHLDB3
GH19F043437 1.5 FANTOM5 Ensembl ENCODE 13 +65.9 65941 3.4 PKNOX1 SIN3A KAT2B ZNF121 SCRT2 RCOR1 FOS REST ZNF592 ZNF217 PHLDB3 LYPD3 ZNF575 PLAUR KCNN4 SMG9 GC19M043399
GH19F043462 1 ENCODE 19.4 +40.4 40403 3.6 HDGF ATF1 PKNOX1 ZNF133 SIN3A ZNF48 YY1 GLIS2 ZNF416 KLF7 PINLYP SRRM5 ZNF575 ZNF45 PHLDB3 ZNF225 ZNF223 CEACAMP10 LOC105372414 CEACAMP1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PHLDB3 on UCSC Golden Path with GeneCards custom track

Promoters for PHLDB3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000216842 735 2001 HDGF PKNOX1 SIN3A ARID4B DMAP1 ZNF2 YY1 SLC30A9 SP3 SP5

Genomic Location for PHLDB3 Gene

Chromosome:
19
Start:
43,474,341 bp from pter
End:
43,504,935 bp from pter
Size:
30,595 bases
Orientation:
Minus strand

Genomic View for PHLDB3 Gene

Genes around PHLDB3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PHLDB3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PHLDB3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PHLDB3 Gene

Proteins for PHLDB3 Gene

  • Protein details for PHLDB3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6NSJ2-PHLB3_HUMAN
    Recommended name:
    Pleckstrin homology-like domain family B member 3
    Protein Accession:
    Q6NSJ2
    Secondary Accessions:
    • Q8N7Z4

    Protein attributes for PHLDB3 Gene

    Size:
    640 amino acids
    Molecular mass:
    71912 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC05082.1; Type=Erroneous termination; Positions=169; Note=Translated as Glu.; Evidence={ECO:0000305};

    Alternative splice isoforms for PHLDB3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PHLDB3 Gene

Post-translational modifications for PHLDB3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for PHLDB3 Gene

Domains & Families for PHLDB3 Gene

Gene Families for PHLDB3 Gene

Protein Domains for PHLDB3 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for PHLDB3 Gene

Graphical View of Domain Structure for InterPro Entry

Q6NSJ2

UniProtKB/Swiss-Prot:

PHLB3_HUMAN :
  • The PH domain mediates the binding to phosphoinositides.
Domain:
  • The PH domain mediates the binding to phosphoinositides.
  • Contains 1 PH domain.
genes like me logo Genes that share domains with PHLDB3: view

Function for PHLDB3 Gene

Gene Ontology (GO) - Molecular Function for PHLDB3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0019899 enzyme binding IPI 23382074
genes like me logo Genes that share ontologies with PHLDB3: view
genes like me logo Genes that share phenotypes with PHLDB3: view

Animal Model Products

miRNA for PHLDB3 Gene

miRTarBase miRNAs that target PHLDB3

Inhibitory RNA Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PHLDB3 Gene

Localization for PHLDB3 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PHLDB3 gene
Compartment Confidence
nucleus 3
cytosol 3
plasma membrane 2
extracellular 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for PHLDB3 Gene

Pathways & Interactions for PHLDB3 Gene

SuperPathways for PHLDB3 Gene

No Data Available

Interacting Proteins for PHLDB3 Gene

STRING Interaction Network Preview (showing 2 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000292140%0d%0a9606.ENSP00000212015%0d%0a9606.ENSP00000344818%0d%0a
Selected Interacting proteins: ENSP00000292140 Q6NSJ2-PHLB3_HUMAN for PHLDB3 Gene via STRING IID

Gene Ontology (GO) - Biological Process for PHLDB3 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for PHLDB3 Gene

Transcripts for PHLDB3 Gene

mRNA/cDNA for PHLDB3 Gene

(5) REFSEQ mRNAs :
(6) Additional mRNA sequences :
(9) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for PHLDB3 Gene

Pleckstrin homology-like domain, family B, member 3:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PHLDB3 Gene

ExUns: 1 ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b · 4c ^ 5a · 5b · 5c ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9
SP1: -
SP2: - -
SP3: - -
SP4: -
SP5:
SP6:

Relevant External Links for PHLDB3 Gene

GeneLoc Exon Structure for
PHLDB3
ECgene alternative splicing isoforms for
PHLDB3

Expression for PHLDB3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for PHLDB3 Gene

mRNA differential expression in normal tissues according to GTEx for PHLDB3 Gene

This gene is overexpressed in Esophagus - Mucosa (x4.7), Skin - Sun Exposed (Lower leg) (x4.4), and Skin - Not Sun Exposed (Suprapubic) (x4.1).

Protein differential expression in normal tissues from HIPED for PHLDB3 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (31.0), Testis (22.6), and Liver (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for PHLDB3 Gene



Protein tissue co-expression partners for PHLDB3 Gene

NURSA nuclear receptor signaling pathways regulating expression of PHLDB3 Gene:

PHLDB3

SOURCE GeneReport for Unigene cluster for PHLDB3 Gene:

Hs.631581
genes like me logo Genes that share expression patterns with PHLDB3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for PHLDB3 Gene

Orthologs for PHLDB3 Gene

This gene was present in the common ancestor of animals.

Orthologs for PHLDB3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PHLDB3 35
  • 96 (a)
OneToOne
cow
(Bos Taurus)
Mammalia PHLDB3 34 35
  • 84.92 (n)
dog
(Canis familiaris)
Mammalia PHLDB3 34 35
  • 84.72 (n)
oppossum
(Monodelphis domestica)
Mammalia PHLDB3 35
  • 84 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Phldb3 34 16 35
  • 80.97 (n)
rat
(Rattus norvegicus)
Mammalia Phldb3 34
  • 80.1 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 2 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia PHLDB3 35
  • 40 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia phldb3 34
  • 55.53 (n)
zebrafish
(Danio rerio)
Actinopterygii PHLDB3 35
  • 47 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG5004 35
  • 10 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.5769 35
  • 24 (a)
OneToMany
Species where no ortholog for PHLDB3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PHLDB3 Gene

ENSEMBL:
Gene Tree for PHLDB3 (if available)
TreeFam:
Gene Tree for PHLDB3 (if available)

Paralogs for PHLDB3 Gene

Paralogs for PHLDB3 Gene

genes like me logo Genes that share paralogs with PHLDB3: view

Variants for PHLDB3 Gene

Sequence variations from dbSNP and Humsavar for PHLDB3 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs10407130 -- 43,495,076(+) ctgag(A/G)gagga intron-variant
rs10407151 -- 43,495,104(+) tcctg(A/G)gtctg intron-variant
rs10407388 -- 43,495,200(+) tgggg(A/C)ctgga intron-variant
rs10407504 -- 43,495,020(+) tgggg(C/G)ctgga intron-variant
rs10407678 -- 43,495,040(+) ctgag(A/G)gaggt intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PHLDB3 Gene

Variant ID Type Subtype PubMed ID
nsv509744 CNV insertion 20534489
nsv2502 CNV insertion 18451855
nsv1057657 CNV gain 25217958
esv3644470 CNV loss 21293372
esv2762041 CNV loss 21179565
esv2668877 CNV deletion 23128226
dgv3603n100 CNV gain 25217958

Variation tolerance for PHLDB3 Gene

Residual Variation Intolerance Score: 92.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.21; 76.07% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PHLDB3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PHLDB3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PHLDB3 Gene

Disorders for PHLDB3 Gene

Relevant External Links for PHLDB3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PHLDB3

No disorders were found for PHLDB3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PHLDB3 Gene

Publications for PHLDB3 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  2. The DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J. … Lucas S.M. (Nature 2004) 3 4 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  5. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein M.Y. … Mann M. (Cell 2015) 3 64

Products for PHLDB3 Gene

Sources for PHLDB3 Gene

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