Free for academic non-profit institutions. Other users need a Commercial license

Aliases for PCBP3 Gene

Aliases for PCBP3 Gene

  • Poly(RC) Binding Protein 3 2 3 5
  • Poly(RC) Binding Protein 3 Overlapping Transcript 2 3
  • PCBP3 Overlapping Transcript 1 2 3
  • PCBP3-Overlapping Transcript 3 4
  • Poly(RC)-Binding Protein 3 2 3
  • PCBP3-OT1 3 4
  • PCBP3OT 3 4
  • PCBP3 Overlapping Transcript (Non-Protein Coding) 2
  • PCBP3-Overlapping Transcript 1 4
  • ALPHA-CP3 3
  • Alpha-CP3 4

External Ids for PCBP3 Gene

Previous HGNC Symbols for PCBP3 Gene

  • PCBP3-OT1
  • PCBP3OT

Previous GeneCards Identifiers for PCBP3 Gene

  • GC21P043790
  • GC21P046124
  • GC21P046126
  • GC21P046094
  • GC21P045888
  • GC21P047063
  • GC21P032648

Summaries for PCBP3 Gene

Entrez Gene Summary for PCBP3 Gene

  • This gene encodes a member of the KH-domain protein subfamily. Proteins of this subfamily, also referred to as alpha-CPs, bind to RNA with a specificity for C-rich pyrimidine regions. Alpha-CPs play important roles in post-transcriptional activities and have different cellular distributions. The protein encoded by this gene lacks the nuclear localization signals found in other subfamily members. Alternative splicing results in multiple transcript variants encoding distinct isoforms. [provided by RefSeq, Jan 2017]

GeneCards Summary for PCBP3 Gene

PCBP3 (Poly(RC) Binding Protein 3) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and RNA binding. An important paralog of this gene is PCBP2.

UniProtKB/Swiss-Prot for PCBP3 Gene

  • Single-stranded nucleic acid binding protein that binds preferentially to oligo dC.

Gene Wiki entry for PCBP3 Gene

Additional gene information for PCBP3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PCBP3 Gene

Genomics for PCBP3 Gene

GeneHancer (GH) Regulatory Elements for PCBP3 Gene

Promoters and enhancers for PCBP3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH21J045639 Promoter/Enhancer 1.5 Ensembl ENCODE dbSUPER 677.8 -1.9 -1921 5.3 PKNOX1 RB1 KLF17 SIN3A BATF ELK1 ZNF143 KLF7 FOS IKZF2 PCBP3 PIR53080 MCM3AP
GH21J045818 Enhancer 1.4 FANTOM5 Ensembl ENCODE 23.1 +176.0 175960 2.7 PKNOX1 ATF1 NEUROD1 SIN3A ZNF2 IRF4 ETS1 ARID2 ZNF207 ZNF143 PCBP3 COL6A1 LOC100129027 ENSG00000275139 GC21P045744
GH21J045632 Enhancer 1.2 Ensembl ENCODE dbSUPER 26.7 -9.6 -9552 2.4 HDGF SMAD1 YBX1 ZNF48 ZNF155 ZNF207 ATF7 IKZF2 SMARCA5 ZNF202 ENSG00000228137 MCM3AP UBE2G2 MCM3AP-AS1 DIP2A POFUT2 COL6A1 PCBP3 S100B ENSG00000227438
GH21J045618 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 20 -25.2 -25206 0.6 NFIB INSM2 KLF17 ZNF335 GLIS2 ZNF366 ZNF350 ZNF662 ZNF398 ZEB2 DIP2A ENSG00000228137 MCM3AP-AS1 PCBP3 MCM3AP COL6A1 UBE2G2 LOC100129027 PIR41676 PIR53080
GH21J045747 Enhancer 1.3 FANTOM5 Ensembl ENCODE 19.8 +104.4 104436 1.5 PKNOX1 INSM2 KLF17 SIN3A GLI4 ZNF366 SCRT2 FOS EGR2 SMARCA5 PCBP3 COL6A1 GC21P045744 PIR59493 GC21M045765
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PCBP3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PCBP3 gene promoter:
  • AREB6
  • NRSF form 1
  • NRSF form 2

Genomic Locations for PCBP3 Gene

Genomic Locations for PCBP3 Gene
chr21:45,643,694-45,942,454
(GRCh38/hg38)
Size:
298,761 bases
Orientation:
Plus strand
chr21:47,063,608-47,362,368
(GRCh37/hg19)
Size:
298,761 bases
Orientation:
Plus strand

Genomic View for PCBP3 Gene

Genes around PCBP3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PCBP3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PCBP3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PCBP3 Gene

Proteins for PCBP3 Gene

  • Protein details for PCBP3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P57721-PCBP3_HUMAN
    Recommended name:
    Poly(rC)-binding protein 3
    Protein Accession:
    P57721
    Secondary Accessions:
    • A8MPS2
    • A8MQ26
    • B7WNN9
    • B7WPC1
    • Q8N9K6
    • Q96EP6

    Protein attributes for PCBP3 Gene

    Size:
    371 amino acids
    Molecular mass:
    39465 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAG09240.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAH12061.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAC04327.2; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for PCBP3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PCBP3 Gene

Post-translational modifications for PCBP3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for PCBP3 Gene

Domains & Families for PCBP3 Gene

Gene Families for PCBP3 Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for PCBP3 Gene

Suggested Antigen Peptide Sequences for PCBP3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with PCBP3: view

No data available for UniProtKB/Swiss-Prot for PCBP3 Gene

Function for PCBP3 Gene

Molecular function for PCBP3 Gene

UniProtKB/Swiss-Prot Function:
Single-stranded nucleic acid binding protein that binds preferentially to oligo dC.

Phenotypes From GWAS Catalog for PCBP3 Gene

Gene Ontology (GO) - Molecular Function for PCBP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001227 transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific DNA binding IEA --
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003690 double-stranded DNA binding IEA --
GO:0003723 RNA binding IEA,NAS 10936052
genes like me logo Genes that share ontologies with PCBP3: view
genes like me logo Genes that share phenotypes with PCBP3: view

Animal Model Products

miRNA for PCBP3 Gene

miRTarBase miRNAs that target PCBP3

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PCBP3 Gene

Localization for PCBP3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PCBP3 Gene

Cytoplasm.

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 PCBP3 gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 5
mitochondrion 3
cytoskeleton 1

Gene Ontology (GO) - Cellular Components for PCBP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus HDA 16780588
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol HDA 16780588
GO:0070062 extracellular exosome HDA 23533145
genes like me logo Genes that share ontologies with PCBP3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for PCBP3 Gene

Pathways & Interactions for PCBP3 Gene

SuperPathways for PCBP3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for PCBP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription by RNA polymerase II IEA --
GO:0016071 mRNA metabolic process NAS 7556077
genes like me logo Genes that share ontologies with PCBP3: view

No data available for Pathways by source and SIGNOR curated interactions for PCBP3 Gene

Drugs & Compounds for PCBP3 Gene

No Compound Related Data Available

Transcripts for PCBP3 Gene

Unigene Clusters for PCBP3 Gene

Poly(rC) binding protein 3:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PCBP3 Gene

No ASD Table

Relevant External Links for PCBP3 Gene

GeneLoc Exon Structure for
PCBP3
ECgene alternative splicing isoforms for
PCBP3

Expression for PCBP3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PCBP3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PCBP3 Gene

This gene is overexpressed in Brain - Cerebellum (x6.7) and Brain - Cerebellar Hemisphere (x5.8).

Protein differential expression in normal tissues from HIPED for PCBP3 Gene

This gene is overexpressed in Skin (42.5), Breast (9.8), and Retina (8.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for PCBP3 Gene



NURSA nuclear receptor signaling pathways regulating expression of PCBP3 Gene:

PCBP3

SOURCE GeneReport for Unigene cluster for PCBP3 Gene:

Hs.474049

Evidence on tissue expression from TISSUES for PCBP3 Gene

  • Nervous system(4.3)
  • Lung(4.2)
genes like me logo Genes that share expression patterns with PCBP3: view

No data available for Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PCBP3 Gene

Orthologs for PCBP3 Gene

This gene was present in the common ancestor of animals.

Orthologs for PCBP3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PCBP3 34 33
  • 99.37 (n)
OneToOne
cow
(Bos Taurus)
Mammalia PCBP3 34 33
  • 94.58 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Pcbp3 33
  • 93.42 (n)
dog
(Canis familiaris)
Mammalia PCBP3 34 33
  • 93.15 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Pcbp3 16 34 33
  • 93.08 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia PCBP3 34
  • 89 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PCBP3 34
  • 79 (a)
OneToOne
chicken
(Gallus gallus)
Aves PCBP3 34
  • 91 (a)
OneToOne
LOC100858906 33
  • 90.07 (n)
lizard
(Anolis carolinensis)
Reptilia PCBP3 34
  • 88 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100490531 33
  • 86.33 (n)
zebrafish
(Danio rerio)
Actinopterygii pcbp3 34
  • 87 (a)
OneToMany
PCBP3 (2 of 2) 34
  • 84 (a)
OneToMany
zgc:162999 33
  • 82.06 (n)
zgc55964 33
fruit fly
(Drosophila melanogaster)
Insecta mub 35 33
  • 58.99 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP004942 33
  • 57.54 (n)
Species where no ortholog for PCBP3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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 PCBP3 Gene

ENSEMBL:
Gene Tree for PCBP3 (if available)
TreeFam:
Gene Tree for PCBP3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PCBP3: view image

Paralogs for PCBP3 Gene

Paralogs for PCBP3 Gene

(5) SIMAP similar genes for PCBP3 Gene using alignment to 4 proteins:

  • PCBP3_HUMAN
  • E9PFP8_HUMAN
  • J3QT27_HUMAN
  • Q5MJP6_HUMAN
genes like me logo Genes that share paralogs with PCBP3: view

Variants for PCBP3 Gene

Sequence variations from dbSNP and Humsavar for PCBP3 Gene

SNP ID Clin Chr 21 pos Variation AA Info Type
rs1000000905 -- 45,884,320(+) G/C intron_variant
rs1000042485 -- 45,923,762(+) A/G intron_variant
rs1000053826 -- 45,892,447(+) G/A intron_variant
rs1000082110 -- 45,862,033(+) A/T intron_variant
rs1000107756 -- 45,902,652(+) C/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for PCBP3 Gene

Variant ID Type Subtype PubMed ID
dgv2514e59 CNV duplication 20981092
dgv4439n100 CNV loss 25217958
dgv4440n100 CNV loss 25217958
dgv722e201 CNV deletion 23290073
dgv723e201 CNV deletion 23290073
dgv724e201 CNV deletion 23290073
dgv725e201 CNV deletion 23290073
dgv726e201 CNV deletion 23290073
dgv7905n54 CNV loss 21841781
esv1008909 CNV gain 20482838
esv1203710 CNV deletion 17803354
esv1362329 CNV insertion 17803354
esv1789041 CNV deletion 17803354
esv2072832 CNV deletion 18987734
esv2079500 CNV deletion 18987734
esv21614 CNV loss 19812545
esv2207359 CNV deletion 18987734
esv23956 CNV gain 19812545
esv2419106 CNV deletion 18987734
esv2479870 CNV insertion 19546169
esv25358 CNV gain 19812545
esv26520 CNV loss 19812545
esv2667634 CNV deletion 23128226
esv26923 CNV loss 19812545
esv2723811 CNV deletion 23290073
esv2723812 CNV deletion 23290073
esv2723813 CNV deletion 23290073
esv2723814 CNV deletion 23290073
esv2723815 CNV deletion 23290073
esv2723816 CNV deletion 23290073
esv2723818 CNV deletion 23290073
esv2723820 CNV deletion 23290073
esv2723821 CNV deletion 23290073
esv2723822 CNV deletion 23290073
esv2723823 CNV deletion 23290073
esv2723824 CNV deletion 23290073
esv2723825 CNV deletion 23290073
esv2723830 CNV deletion 23290073
esv2723833 CNV deletion 23290073
esv2723834 CNV deletion 23290073
esv2723835 CNV deletion 23290073
esv2723836 CNV deletion 23290073
esv2723837 CNV deletion 23290073
esv2723838 CNV deletion 23290073
esv2723841 CNV deletion 23290073
esv2723844 CNV deletion 23290073
esv2723845 CNV deletion 23290073
esv2723846 CNV deletion 23290073
esv2758821 CNV loss 17122850
esv28816 CNV gain+loss 19812545
esv3344049 CNV duplication 20981092
esv3391050 CNV insertion 20981092
esv3557853 CNV deletion 23714750
esv3647151 CNV loss 21293372
esv3647152 CNV loss 21293372
esv5347 CNV loss 18987735
esv7183 CNV gain 19470904
esv8638 CNV gain 19470904
esv990814 CNV insertion 20482838
esv999960 CNV deletion 20482838
nsv1072190 CNV deletion 25765185
nsv1112365 CNV deletion 24896259
nsv1112367 CNV deletion 24896259
nsv1114302 CNV deletion 24896259
nsv1115621 CNV duplication 24896259
nsv1116008 CNV insertion 24896259
nsv1116934 CNV deletion 24896259
nsv1117935 CNV deletion 24896259
nsv1126009 CNV deletion 24896259
nsv1126615 CNV deletion 24896259
nsv1127904 CNV deletion 24896259
nsv1142334 CNV tandem duplication 24896259
nsv1142335 CNV tandem duplication 24896259
nsv1143261 CNV deletion 24896259
nsv1147697 CNV deletion 26484159
nsv1148321 CNV deletion 26484159
nsv1152833 CNV deletion 26484159
nsv187323 CNV deletion 16902084
nsv470910 CNV gain 18288195
nsv509804 CNV insertion 20534489
nsv510508 OTHER sequence alteration 20534489
nsv513578 CNV insertion 21212237
nsv587865 CNV loss 21841781
nsv587866 CNV loss 21841781
nsv587867 CNV gain 21841781
nsv587870 CNV loss 21841781
nsv587871 CNV loss 21841781
nsv953655 CNV deletion 24416366
nsv953656 CNV deletion 24416366

Variation tolerance for PCBP3 Gene

Residual Variation Intolerance Score: 22.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.59; 30.63% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PCBP3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PCBP3

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PCBP3 Gene

Disorders for PCBP3 Gene

No disorders were found for PCBP3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PCBP3 Gene

Publications for PCBP3 Gene

  1. Identification of two novel mammalian genes establishes a subfamily of KH-domain RNA-binding proteins. (PMID: 10936052) Makeyev AV … Liebhaber SA (Genomics 2000) 2 3 4 22 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. A novel set of nuclear localization signals determine distributions of the alphaCP RNA-binding proteins. (PMID: 14612387) Chkheidze AN … Liebhaber SA (Molecular and cellular biology 2003) 3 4 58
  5. The DNA sequence of human chromosome 21. (PMID: 10830953) Hattori M … Chromosome 21 mapping and sequencing consortium (Nature 2000) 3 4 58

Products for PCBP3 Gene

Sources for PCBP3 Gene

Content
Loading form....