Aliases for CPSF4L Gene

Aliases for CPSF4L Gene

  • Cleavage And Polyadenylation Specific Factor 4 Like 2 3 5
  • Putative Cleavage And Polyadenylation Specificity Factor Subunit 4-Like Protein 3 4
  • CPSF4L 5

External Ids for CPSF4L Gene

Previous GeneCards Identifiers for CPSF4L Gene

  • GC17M068757
  • GC17M071244
  • GC17M066653

Summaries for CPSF4L Gene

GeneCards Summary for CPSF4L Gene

CPSF4L (Cleavage And Polyadenylation Specific Factor 4 Like) is a Protein Coding gene. Among its related pathways are mRNA surveillance pathway and Measles. Gene Ontology (GO) annotations related to this gene include RNA binding. An important paralog of this gene is CPSF4.

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CPSF4L Gene

Genomics for CPSF4L Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for CPSF4L 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
GH17J073261 Promoter/Enhancer 1.6 Ensembl ENCODE CraniofacialAtlas dbSUPER 250.7 +1.3 1259 2.1 MXD4 CEBPA ZFP64 KDM6A THAP11 FOXA2 ZNF511 SMAD4 SAP130 ZNF341 CPSF4L HSALNG0118585 COG1 HSALNG0118584 FAM104A
GH17J073264 Enhancer 0.3 dbSUPER 250.7 -0.4 -446 0.4 IKZF5 ZBTB25 CPSF4L HSALNG0118585 lnc-C17orf80-1 CDC42EP4
GH17J073287 Promoter/Enhancer 1.9 VISTA FANTOM5 Ensembl ENCODE dbSUPER 17 -28.0 -27972 7.7 SP1 MXD4 CEBPA DEK IKZF1 HES1 MBD2 ZNF217 BRCA1 BHLHE40 CDC42EP4 CPSF4L FAM104A C17orf80 piR-43164-030 lnc-CPSF4L-1
GH17J073298 Enhancer 1.1 Ensembl ENCODE dbSUPER 11.7 -36.5 -36522 5 IKZF1 SMAD4 RXRA TAF9B RARA FOXA2 THRB RBM22 SKIL JUND C17orf80 CPSF4L FAM104A CDC42EP4 lnc-CPSF4L-1 piR-43164-030
GH17J073346 Enhancer 1 Ensembl ENCODE CraniofacialAtlas dbSUPER 12 -84.5 -84511 3.8 CTCF ZIC2 GLIS1 EGR2 RAD21 ZFHX2 CDC42EP4 CPSF4L FAM104A C17orf80 SDK2 HSALNG0118590 RF00017-2533
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CPSF4L on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CPSF4L

Top Transcription factor binding sites by QIAGEN in the CPSF4L gene promoter:
  • E47
  • GATA-6
  • Lmo2
  • MAZR
  • MZF-1
  • Nkx2-5
  • RSRFC4
  • Tal-1
  • YY1
  • Zic3

Genomic Locations for CPSF4L Gene

Latest Assembly
chr17:73,242,343-73,263,778
(GRCh38/hg38)
Size:
21,436 bases
Orientation:
Minus strand

Previous Assembly
chr17:71,244,588-71,258,019
(GRCh37/hg19 by Entrez Gene)
Size:
13,432 bases
Orientation:
Minus strand

chr17:71,244,588-71,258,491
(GRCh37/hg19 by Ensembl)
Size:
13,904 bases
Orientation:
Minus strand

Genomic View for CPSF4L Gene

Genes around CPSF4L on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CPSF4L Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CPSF4L Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CPSF4L Gene

Proteins for CPSF4L Gene

  • Protein details for CPSF4L Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A6NMK7-CPS4L_HUMAN
    Recommended name:
    Putative cleavage and polyadenylation specificity factor subunit 4-like protein
    Protein Accession:
    A6NMK7
    Secondary Accessions:
    • A8MU95
    • B2RXI9

    Protein attributes for CPSF4L Gene

    Size:
    179 amino acids
    Molecular mass:
    20727 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AC087301; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

neXtProt entry for CPSF4L Gene

Post-translational modifications for CPSF4L Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CPSF4L Gene

No data available for DME Specific Peptides for CPSF4L Gene

Domains & Families for CPSF4L Gene

Gene Families for CPSF4L Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for CPSF4L Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for CPSF4L Gene

GenScript: Design optimal peptide antigens:
  • Putative cleavage and polyadenylation specificity factor subunit 4-like protein (CPS4L_HUMAN)

Graphical View of Domain Structure for InterPro Entry

A6NMK7

UniProtKB/Swiss-Prot:

CPS4L_HUMAN :
  • Belongs to the CPSF4/YTH1 family.
Family:
  • Belongs to the CPSF4/YTH1 family.
genes like me logo Genes that share domains with CPSF4L: view

Function for CPSF4L Gene

Phenotypes From GWAS Catalog for CPSF4L Gene

Gene Ontology (GO) - Molecular Function for CPSF4L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with CPSF4L: view

Phenotypes for CPSF4L Gene

genes like me logo Genes that share phenotypes with CPSF4L: view

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CPSF4L

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for CPSF4L Gene

Localization for CPSF4L 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 CPSF4L gene
Compartment Confidence
nucleus 3
extracellular 2
cytosol 1

Gene Ontology (GO) - Cellular Components for CPSF4L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005847 mRNA cleavage and polyadenylation specificity factor complex IBA 21873635
genes like me logo Genes that share ontologies with CPSF4L: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from the Human Protein Atlas (HPA) for CPSF4L Gene

Pathways & Interactions for CPSF4L Gene

PathCards logo

SuperPathways for CPSF4L Gene

SuperPathway Contained pathways
1 Measles
2 mRNA surveillance pathway
genes like me logo Genes that share pathways with CPSF4L: view

Pathways by source for CPSF4L Gene

2 KEGG pathways for CPSF4L Gene

Gene Ontology (GO) - Biological Process for CPSF4L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0098789 pre-mRNA cleavage required for polyadenylation IBA 21873635
genes like me logo Genes that share ontologies with CPSF4L: view

No data available for SIGNOR curated interactions for CPSF4L Gene

Drugs & Compounds for CPSF4L Gene

No Compound Related Data Available

Transcripts for CPSF4L Gene

mRNA/cDNA for CPSF4L Gene

1 REFSEQ mRNAs :
1 NCBI additional mRNA sequence :
2 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CPSF4L

Alternative Splicing Database (ASD) splice patterns (SP) for CPSF4L Gene

No ASD Table

Relevant External Links for CPSF4L Gene

GeneLoc Exon Structure for
CPSF4L

Expression for CPSF4L Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CPSF4L Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CPSF4L Gene

This gene is overexpressed in Testis (x4.4).

Protein differential expression in normal tissues from HIPED for CPSF4L Gene

This gene is overexpressed in Fetal ovary (46.0), Fetal heart (14.5), and Gallbladder (8.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for CPSF4L Gene



Protein tissue co-expression partners for CPSF4L Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CPSF4L

SOURCE GeneReport for Unigene cluster for CPSF4L Gene:

Hs.534707
genes like me logo Genes that share expression patterns with CPSF4L: view

Primer products for research

No data available for mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for CPSF4L Gene

Orthologs for CPSF4L Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for CPSF4L Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia CPSF4L 30 31
  • 99.63 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia CPSF4L 30
  • 83.97 (n)
Rat
(Rattus norvegicus)
Mammalia Cpsf4l 30
  • 82.53 (n)
Mouse
(Mus musculus)
Mammalia Cpsf4l 30 17 31
  • 81.33 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia CPSF4L 31
  • 76 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia CPSF4L 31
  • 42 (a)
OneToOne
Chicken
(Gallus gallus)
Aves CPSF4L 31
  • 29 (a)
OneToOne
Fruit Fly
(Drosophila melanogaster)
Insecta Clp 31
  • 33 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea cpsf-4 31
  • 28 (a)
OneToMany
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes YTH1 31
  • 31 (a)
OneToMany
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.9063 31
  • 34 (a)
OneToMany
Species where no ortholog for CPSF4L was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • Dog (Canis familiaris)
  • 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)
  • Lizard (Anolis carolinensis)
  • 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 Vase (Ciona intestinalis)
  • 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)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Zebrafish (Danio rerio)

Evolution for CPSF4L Gene

ENSEMBL:
Gene Tree for CPSF4L (if available)
TreeFam:
Gene Tree for CPSF4L (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CPSF4L: view image

Paralogs for CPSF4L Gene

Paralogs for CPSF4L Gene

(1) SIMAP similar genes for CPSF4L Gene using alignment to 2 proteins:

  • CPS4L_HUMAN
  • H9KVA5_HUMAN

Pseudogenes.org Pseudogenes for CPSF4L Gene

genes like me logo Genes that share paralogs with CPSF4L: view

Variants for CPSF4L Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for CPSF4L Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for CPSF4L Gene

Variant ID Type Subtype PubMed ID
esv3641216 CNV loss 21293372
nsv2138 CNV insertion 18451855
nsv833534 CNV loss 17160897

Variation tolerance for CPSF4L Gene

Gene Damage Index Score: 0.66; 14.04% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CPSF4L Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CPSF4L

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CPSF4L Gene

Disorders for CPSF4L Gene

Additional Disease Information for CPSF4L

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform

No disorders were found for CPSF4L Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CPSF4L Gene

Publications for CPSF4L Gene

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 41
  2. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PMID: 16625196) Zody MC … Nusbaum C (Nature 2006) 3 4
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3

Products for CPSF4L Gene

Sources for CPSF4L Gene