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

PCIF1 Gene(Protein Coding)

PDX1 C-Terminal Inhibiting Factor 1

GCID:
GC20P045934
GIFtS:
40
Genes Participants
UDN Logo

Aliases for PCIF1 Gene

Aliases for PCIF1 Gene

  • PDX1 C-Terminal Inhibiting Factor 1 2 3 5
  • Protein Phosphatase 1, Regulatory Subunit 121 2 3
  • C20orf67 3 4
  • Phosphorylated CTD-Interacting Factor 1 3
  • PDX-1 C Terminus-Interacting Factor 1 3
  • Chromosome 20 Open Reading Frame 67 2
  • PPP1R121 3

External Ids for PCIF1 Gene

Previous HGNC Symbols for PCIF1 Gene

  • C20orf67

Previous GeneCards Identifiers for PCIF1 Gene

  • GC20P043997
  • GC20P044563
  • GC20P041304

Summaries for PCIF1 Gene

GeneCards Summary for PCIF1 Gene

PCIF1 (PDX1 C-Terminal Inhibiting Factor 1) is a Protein Coding gene.

UniProtKB/Swiss-Prot for PCIF1 Gene

  • May play a role in transcription elongation or in coupling transcription to pre-mRNA processing through its association with the phosphorylated C-terminal domain (CTD) of RNAPII largest subunit.

Additional gene information for PCIF1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PCIF1 Gene

Genomics for PCIF1 Gene

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for PCIF1 Gene

Promoters and enhancers for PCIF1 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
GH20I045933 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 562.6 +1.7 1702 6.3 CLOCK MLX ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF213 E2F8 ZNF143 PCIF1 SNX21 NCOA5 TP53RK SPATA25 ZNF335 PLTP SLC35C2 WFDC3 ENSG00000271984
GH20I045334 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 45.8 -592.5 -592548 14.4 CLOCK MLX ZFP64 DMAP1 YY1 ZNF143 SP3 NFYC SSRP1 GLIS1 SDC4 NCOA5 PCIF1 ZNF335 ZSWIM1 CD40 SPATA25 ENSG00000271984 SNX21 DBNDD2
GH20I045967 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 51.7 +36.2 36246 5.8 CLOCK ZFP64 FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF416 ZNF143 ZNF335 NCOA5 SLC35C2 TP53RK ZNF334 PCIF1 ZNF663P CD40 ENSG00000271984 SPATA25
GH20I045880 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 33.4 -53.4 -53356 1.5 HDGF PKNOX1 FOXA2 SMAD1 MLX ARNT ARID4B NEUROD1 SIN3A DMAP1 ZSWIM1 NCOA5 TP53RK PCIF1 CD40 ZNF335 WFDC3 SLC35C2 SPATA25 RPS2P7
GH20I044965 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 24.4 -965.7 -965702 7.5 CLOCK MLX DMAP1 YY1 SLC30A9 E2F8 ZNF143 SP3 NFYC SSRP1 STK4 PCIF1 SYS1 ENSG00000271984 PABPC1L DNTTIP1 OSER1 WFDC5 TOMM34 SERINC3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around PCIF1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PCIF1 gene promoter:

Genomic Locations for PCIF1 Gene

Genomic Locations for PCIF1 Gene
chr20:45,934,628-45,948,023
(GRCh38/hg38)
Size:
13,396 bases
Orientation:
Plus strand
chr20:44,563,267-44,576,662
(GRCh37/hg19)

Genomic View for PCIF1 Gene

Genes around PCIF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PCIF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PCIF1 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for PCIF1 Gene

Proteins for PCIF1 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for PCIF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H4Z3-PCIF1_HUMAN
    Recommended name:
    Phosphorylated CTD-interacting factor 1
    Protein Accession:
    Q9H4Z3
    Secondary Accessions:
    • E1P5P1
    • Q54AB9
    • Q9NT85

    Protein attributes for PCIF1 Gene

    Size:
    704 amino acids
    Molecular mass:
    80670 Da
    Quaternary structure:
    • Interacts with the phosphorylated C-terminal domain (CTD) of RNAPII largest subunit.

    Three dimensional structures from OCA and Proteopedia for PCIF1 Gene

neXtProt entry for PCIF1 Gene

Protein Expression for PCIF1 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for PCIF1 Gene

No Post-translational modifications

Other Protein References for PCIF1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PCIF1 Gene

Domains & Families for PCIF1 Gene

Gene Families for PCIF1 Gene

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

Protein Domains for PCIF1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for PCIF1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9H4Z3

UniProtKB/Swiss-Prot:

PCIF1_HUMAN :
  • The WW domain is sufficient for direct and specific interaction with the phosphorylated CTD of RNAPII largest subunit.
Domain:
  • The WW domain is sufficient for direct and specific interaction with the phosphorylated CTD of RNAPII largest subunit.
genes like me logo Genes that share domains with PCIF1: view

Function for PCIF1 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for PCIF1 Gene

UniProtKB/Swiss-Prot Function:
May play a role in transcription elongation or in coupling transcription to pre-mRNA processing through its association with the phosphorylated C-terminal domain (CTD) of RNAPII largest subunit.

Phenotypes From GWAS Catalog for PCIF1 Gene

genes like me logo Genes that share phenotypes with PCIF1: view

Animal Model Products

miRNA for PCIF1 Gene

miRTarBase miRNAs that target PCIF1

Clone Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PCIF1 Gene

Localization for PCIF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PCIF1 Gene

Nucleus.

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 PCIF1 gene
Compartment Confidence
cytoskeleton 5
nucleus 5
extracellular 4
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytokinetic bridge (3)
  • Microtubules (3)
  • Nucleoplasm (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PCIF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IDA --
GO:0015630 microtubule cytoskeleton IDA --
GO:0045171 intercellular bridge IDA --
genes like me logo Genes that share ontologies with PCIF1: view

Pathways & Interactions for PCIF1 Gene

SuperPathways for PCIF1 Gene

PathCards logo More details on SuperPathways for PCIF1
No Data Available

Gene Ontology (GO) - Biological Process for PCIF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0010923 negative regulation of phosphatase activity IDA 19389623
genes like me logo Genes that share ontologies with PCIF1: view

No data available for Pathways by source and SIGNOR curated interactions for PCIF1 Gene

Drugs & Compounds for PCIF1 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for PCIF1 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for PCIF1 Gene

(5) REFSEQ mRNAs :
(8) Additional mRNA sequences :
(229) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for PCIF1 Gene

PDX1 C-terminal inhibiting factor 1:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PCIF1 Gene

No ASD Table

Relevant External Links for PCIF1 Gene

GeneLoc Exon Structure for
PCIF1
ECgene alternative splicing isoforms for
PCIF1

Expression for PCIF1 Gene

Products:

  1. Primer

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PCIF1 Gene

mRNA expression in normal human tissues for PCIF1 Gene
mRNA expression by GTEx for PCIF1 GenemRNA expression by BioGPS for PCIF1 Gene

Protein differential expression in normal tissues from HIPED for PCIF1 Gene

This gene is overexpressed in Breast (18.2), Peripheral blood mononuclear cells (8.4), and Lymph node (6.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for PCIF1 Gene



Protein tissue co-expression partners for PCIF1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PCIF1 Gene:

PCIF1

SOURCE GeneReport for Unigene cluster for PCIF1 Gene:

Hs.472856

mRNA Expression by UniProt/SwissProt for PCIF1 Gene:

Q9H4Z3-PCIF1_HUMAN
Tissue specificity: Ubiquitous.

Evidence on tissue expression from TISSUES for PCIF1 Gene

  • Muscle(4.3)
  • Pancreas(4.3)
  • Liver(4.2)
  • Nervous system(3.4)
genes like me logo Genes that share expression patterns with PCIF1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for PCIF1 Gene

Orthologs for PCIF1 Gene

This gene was present in the common ancestor of animals.

Orthologs for PCIF1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia PCIF1 33 34
  • 99.91 (n)
dog
(Canis familiaris)
 Mammalia PCIF1 33 34
  • 92.12 (n)
cow
(Bos Taurus)
 Mammalia PCIF1 33 34
  • 92.04 (n)
rat
(Rattus norvegicus)
 Mammalia Pcif1 33
  • 90 (n)
mouse
(Mus musculus)
 Mammalia Pcif1 33 16 34
  • 89.9 (n)
oppossum
(Monodelphis domestica)
 Mammalia PCIF1 34
  • 87 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves PCIF1 33 34
  • 78.73 (n)
lizard
(Anolis carolinensis)
 Reptilia PCIF1 34
  • 81 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia pcif1 33
  • 69.27 (n)
Str.2070 33
zebrafish
(Danio rerio)
 Actinopterygii pcif1 33 34
  • 67.37 (n)
fruit fly
(Drosophila melanogaster)
 Insecta CG11399 33 34
  • 56.97 (n)
African malaria mosquito
(Anopheles gambiae)
 Insecta AgaP_AGAP011933 33
  • 53.6 (n)
sea squirt
(Ciona intestinalis)
 Ascidiacea Cin.3903 33
Species where no ortholog for PCIF1 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)
  • platypus (Ornithorhynchus anatinus)
  • 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 PCIF1 Gene

ENSEMBL:
Gene Tree for PCIF1 (if available)
TreeFam:
Gene Tree for PCIF1 (if available)

Paralogs for PCIF1 Gene

No data available for Paralogs for PCIF1 Gene

Variants for PCIF1 Gene

Sequence variations from dbSNP and Humsavar for PCIF1 Gene

SNP ID Clin Chr 20 pos Variation AA Info Type
rs1000389174 -- 45,944,235(+) T/C intron_variant
rs1000518165 -- 45,935,640(+) T/C intron_variant
rs1000987793 -- 45,934,384(+) C/T upstream_transcript_variant
rs1001096743 -- 45,938,341(+) C/G intron_variant
rs1001133934 -- 45,946,290(+) G/A coding_sequence_variant, missense_variant, non_coding_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for PCIF1 Gene

Variant ID Type Subtype PubMed ID
esv8950 CNV gain 19470904
nsv517296 CNV loss 19592680
nsv833990 CNV loss 17160897
nsv833991 CNV loss 17160897

Variation tolerance for PCIF1 Gene

Residual Variation Intolerance Score: 13.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.99; 36.72% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PCIF1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PCIF1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PCIF1 Gene

Disorders for PCIF1 Gene

Additional Disease Information for PCIF1

Genetic Association Database
(GAD)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for PCIF1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PCIF1 Gene

Publications for PCIF1 Gene

  1. PCIF1, a novel human WW domain-containing protein, interacts with the phosphorylated RNA polymerase II. (PMID: 12565871) Fan H … Hirose Y (Biochemical and biophysical research communications 2003) 2 3 4 22 58
  2. Identification of PCIF1, a POZ domain protein that inhibits PDX-1 (MODY4) transcriptional activity. (PMID: 15121856) Liu A … Stoffers DA (Molecular and cellular biology 2004) 2 3 22 58
  3. Prolyl isomerase Pin1 shares functional similarity with phosphorylated CTD interacting factor PCIF1 in vertebrate cells. (PMID: 19682092) Yunokuchi I … Hirose Y (Genes to cells : devoted to molecular & cellular mechanisms 2009) 3 22 58
  4. Common variants at 30 loci contribute to polygenic dyslipidemia. (PMID: 19060906) Kathiresan S … Cupples LA (Nature genetics 2009) 3 44 58
  5. Human phosphorylated CTD-interacting protein, PCIF1, negatively modulates gene expression by RNA polymerase II. (PMID: 18294453) Hirose Y … Ohkuma Y (Biochemical and biophysical research communications 2008) 3 22 58

Products for PCIF1 Gene

Sources for PCIF1 Gene

Content
Loading form....