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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

Regulatory Elements for PCIF1 Gene

Enhancers for PCIF1 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
GH20H045967 1.5 ENCODE dbSUPER 69.8 +36.2 36246 5 ZFP64 FEZF1 DMAP1 YY1 ZNF416 ZNF143 SP3 NFYC ZFP41 MEF2D NCOA5 ZNF335 PCIF1 SLC35C2 TP53RK ZNF663P CD40 ZNF334 ENSG00000271984 PIGT
GH20H045334 2 FANTOM5 Ensembl ENCODE dbSUPER 45.7 -592.5 -592548 14 MLX ZFP64 DMAP1 YY1 ZNF143 SP3 NFYC ZC3H11A SSRP1 GLIS1 NCOA5 PCIF1 ZNF335 ZSWIM1 SPATA25 SNX21 CD40 ENSG00000233352 LOC105372630 RPL5P2
GH20H045880 1.1 ENCODE 33.3 -53.4 -53369 1 HDGF PKNOX1 MLX ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 NCOA5 TP53RK PCIF1 CD40 ZNF335 WFDC3 SLC35C2 SPATA25 RPS2P7 NEURL2
GH20H045992 1.3 FANTOM5 ENCODE 26.9 +58.9 58949 1 PKNOX1 SIN3A ZBTB7B ELK1 FOS DEK TSHZ1 SMARCB1 ZNF592 SREBF1 ZNF335 PCIF1 CD40 NCOA5 ENSG00000271984 PIGT SLC35C2 SDC4 WFDC3 PLTP
GH20H046088 1.1 ENCODE 27.8 +154.8 154796 2 FOXA2 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF766 NCOA5 ZNF335 TP53RK PCIF1 ZSWIM1 ZNF334 SNX21 CD40 SLC35C2 PIGT
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PCIF1 on UCSC Golden Path with GeneCards custom track

Promoters for PCIF1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000137724 372 2401 MLX ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 ZC3H11A NFYC

Genomic Location for PCIF1 Gene

Chromosome:
20
Start:
45,934,628 bp from pter
End:
45,948,023 bp from pter
Size:
13,396 bases
Orientation:
Plus strand

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 StructureGene Density

RefSeq DNA sequence for PCIF1 Gene

Proteins for PCIF1 Gene

  • 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

Post-translational modifications for PCIF1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for PCIF1 Gene

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

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

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

CRISPR Products

miRNA for PCIF1 Gene

miRTarBase miRNAs that target PCIF1

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for PCIF1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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

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

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

No Compound Related Data Available

Transcripts for PCIF1 Gene

Unigene Clusters for PCIF1 Gene

PDX1 C-terminal inhibiting factor 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for PCIF1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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

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

Primer Products

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 Sequence Context AA Info Type
rs1000389174 -- 45,944,235(+) GGGCT(C/T)TCTTT intron-variant
rs1000518165 -- 45,935,640(+) TCACA(C/T)AGGAA intron-variant
rs1000987793 -- 45,934,384(+) GCGCA(C/T)GCTCA upstream-variant-2KB, utr-variant-3-prime
rs1001096743 -- 45,938,341(+) CCTTC(C/G)CTAGT intron-variant
rs1001133934 -- 45,946,290(+) TTGGC(A/G)TCAGC nc-transcript-variant, reference, missense

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)

Relevant External Links 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

Relevant External Links for PCIF1

Genetic Association Database (GAD)
PCIF1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PCIF1

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 60
  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 60
  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 60
  4. Common variants at 30 loci contribute to polygenic dyslipidemia. (PMID: 19060906) Kathiresan S … Cupples LA (Nature genetics 2009) 3 45 60
  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 60

Products for PCIF1 Gene

Sources for PCIF1 Gene

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