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Aliases for CPSF7 Gene

Aliases for CPSF7 Gene

  • Cleavage And Polyadenylation Specific Factor 7 2 3 5
  • Cleavage And Polyadenylation Specificity Factor 59 KDa Subunit 3 4
  • Pre-MRNA Cleavage Factor Im 59 KDa Subunit 3 4
  • Cleavage Factor Im Complex 59 KDa Subunit 2 3
  • CPSF 59 KDa Subunit 3 4
  • CFIm59 3 4
  • Cleavage And Polyadenylation Specificity Factor Subunit 7 3
  • Cleavage And Polyadenylation Specific Factor 7, 59kDa 2
  • Pre MRNA Cleavage Factor I, 59 KDa Subunit 2
  • Pre-MRNA Cleavage Factor I, 59 KDa Subunit 3

External Ids for CPSF7 Gene

Previous GeneCards Identifiers for CPSF7 Gene

  • GC11M060928
  • GC11M061170
  • GC11M057498

Summaries for CPSF7 Gene

Entrez Gene Summary for CPSF7 Gene

  • Cleavage factor Im (CFIm) is one of six factors necessary for correct cleavage and polyadenylation of pre-mRNAs. CFIm is composed of three different subunits of 25, 59, and 68 kDa, and it functions as a heterotetramer, with a dimer of the 25 kDa subunit binding to two of the 59 or 68 kDa subunits. The protein encoded by this gene represents the 59 kDa subunit, which can interact with the splicing factor U2 snRNP Auxiliary Factor (U2AF) 65 to link the splicing and polyadenylation complexes. [provided by RefSeq, Oct 2016]

GeneCards Summary for CPSF7 Gene

CPSF7 (Cleavage And Polyadenylation Specific Factor 7) is a Protein Coding gene. Among its related pathways are Gene Expression and mRNA surveillance pathway. GO annotations related to this gene include nucleic acid binding and nucleotide binding. An important paralog of this gene is CPSF6.

UniProtKB/Swiss-Prot for CPSF7 Gene

  • Component of the cleavage factor Im complex (CFIm) that plays a key role in pre-mRNA 3-processing. Binds to cleavage and polyadenylation RNA substrates.

Gene Wiki entry for CPSF7 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CPSF7 Gene

Genomics for CPSF7 Gene

Regulatory Elements for CPSF7 Gene

Enhancers for CPSF7 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
GH11G061428 1.4 ENCODE dbSUPER 8.7 +0.1 101 3.3 HNRNPUL1 PKNOX1 MLX CREB3L1 WRNIP1 ARID4B SIN3A YBX1 DMAP1 ZNF2 TMEM216 DDB1 TKFC CPSF7 SDHAF2 ENSG00000256591
GH11G061949 1.6 Ensembl ENCODE dbSUPER 6.1 -520.1 -520086 2.0 PKNOX1 ZNF766 ZNF548 FOS KLF13 ZNF263 NFYC ZNF592 MEF2D SMARCA4 NXF1 SNHG1 TMEM138 EML3 MTA2 METTL12 UBXN1 CPSF7 BEST1 GC11M061964
GH11G061693 1.9 FANTOM5 Ensembl ENCODE dbSUPER 4.3 -267.9 -267894 8.5 PKNOX1 SIN3A ZBTB7B FOS DEK ZNF263 ZHX2 REST SMARCB1 ZNF592 MYRF DKFZP434K028 DAGLA SYT7 FTH1 CYB561A3 VWCE SDHAF2 DDB1 CPSF7
GH11G061167 1.6 FANTOM5 Ensembl ENCODE dbSUPER 4.8 +262.3 262349 1.1 HDGF TBP PKNOX1 EGR1 ZNF143 ZNF207 PCBP1 ETV6 RELB IKZF2 CD5 SLC15A3 CYB561A3 CPSF7 SDHAF2 VPS37C TMEM138 GC11P061168 PGA3
GH11G061355 1.7 Ensembl ENCODE dbSUPER 4.2 +70.2 70156 8.6 CREB3L1 AGO1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC TBX21 TMEM138 PRPF19 TMEM216 CPSF7 ENSG00000279246
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CPSF7 on UCSC Golden Path with GeneCards custom track

Promoters for CPSF7 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000040265 31 2001 HNRNPUL1 PKNOX1 MLX CREB3L1 WRNIP1 ARID4B SIN3A YBX1 DMAP1 ZNF2

Genomic Location for CPSF7 Gene

Chromosome:
11
Start:
61,402,641 bp from pter
End:
61,430,031 bp from pter
Size:
27,391 bases
Orientation:
Minus strand

Genomic View for CPSF7 Gene

Genes around CPSF7 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CPSF7 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CPSF7 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CPSF7 Gene

Proteins for CPSF7 Gene

  • Protein details for CPSF7 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N684-CPSF7_HUMAN
    Recommended name:
    Cleavage and polyadenylation specificity factor subunit 7
    Protein Accession:
    Q8N684
    Secondary Accessions:
    • B3KU04
    • C9K0Q4
    • Q7Z3H9
    • Q9H025
    • Q9H9V1

    Protein attributes for CPSF7 Gene

    Size:
    471 amino acids
    Molecular mass:
    52050 Da
    Quaternary structure:
    • Component of the cleavage factor Im (CFIm) complex, composed of, at least, NUDT21/CPSF5 and CPSF6 or CPSF7. Within the cleavage factor Im complex, the NUDT21/CPSF5 homodimer is at the core of a heterotetramer, and is clasped by two additional subunits (CPSF6 or CPSF7). Interacts with NUDT21/CPSF5.
    SequenceCaution:
    • Sequence=AAH18135.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAB14118.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=CAD97884.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for CPSF7 Gene

    Alternative splice isoforms for CPSF7 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CPSF7 Gene

Post-translational modifications for CPSF7 Gene

  • Ubiquitination at isoforms=2, 3148 and Lys379
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for CPSF7 Gene

Domains & Families for CPSF7 Gene

Gene Families for CPSF7 Gene

Protein Domains for CPSF7 Gene

Suggested Antigen Peptide Sequences for CPSF7 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8N684

UniProtKB/Swiss-Prot:

CPSF7_HUMAN :
  • Belongs to the RRM CPSF6/7 family.
Family:
  • Belongs to the RRM CPSF6/7 family.
genes like me logo Genes that share domains with CPSF7: view

Function for CPSF7 Gene

Molecular function for CPSF7 Gene

UniProtKB/Swiss-Prot Function:
Component of the cleavage factor Im complex (CFIm) that plays a key role in pre-mRNA 3-processing. Binds to cleavage and polyadenylation RNA substrates.

Gene Ontology (GO) - Molecular Function for CPSF7 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA,IDA 22658674
GO:0005515 protein binding IPI 16189514
genes like me logo Genes that share ontologies with CPSF7: view

Phenotypes for CPSF7 Gene

genes like me logo Genes that share phenotypes with CPSF7: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CPSF7 Gene

Localization for CPSF7 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CPSF7 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 CPSF7 gene
Compartment Confidence
nucleus 5
cytosol 3

Gene Ontology (GO) - Cellular Components for CPSF7 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 20695905
GO:0005654 nucleoplasm TAS --
GO:0005849 mRNA cleavage factor complex IDA 20695905
GO:0016020 membrane IDA 19946888
genes like me logo Genes that share ontologies with CPSF7: view

Pathways & Interactions for CPSF7 Gene

genes like me logo Genes that share pathways with CPSF7: view

Pathways by source for CPSF7 Gene

Gene Ontology (GO) - Biological Process for CPSF7 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006369 termination of RNA polymerase II transcription TAS --
GO:0006397 mRNA processing IEA --
GO:0031124 mRNA 3-end processing TAS --
GO:0051262 protein tetramerization IDA 20695905
genes like me logo Genes that share ontologies with CPSF7: view

No data available for SIGNOR curated interactions for CPSF7 Gene

Drugs & Compounds for CPSF7 Gene

No Compound Related Data Available

Transcripts for CPSF7 Gene

Unigene Clusters for CPSF7 Gene

Cleavage and polyadenylation specific factor 7, 59kDa:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for CPSF7 Gene

ExUns: 1a · 1b · 1c · 1d · 1e · 1f · 1g ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5a · 5b · 5c ^ 6a · 6b ^ 7 ^ 8a · 8b ^ 9a · 9b ^ 10a · 10b ^ 11a · 11b ·
SP1: - - - - -
SP2: - - - - - - - - - - - - - -
SP3: - - - - - - - - - - - - - -
SP4: - - - - - - - - - -
SP5: - - - - - - - - - - - - -
SP6: - - - - - - - - - - - - - -
SP7: - - - - - - - - - - - - -
SP8: - - - - - - - - - - - -
SP9: - - - - - - - - - -
SP10: - - - - -
SP11:
SP12: - - - - - - - - - - - - - - - - -
SP13: - - - - - - - - - - - - - - -
SP14: - - - - - - - - - - - - -
SP15: - - - - - - - - - - - -
SP16: - - - - - - - - - - -
SP17: - - - - - - - - -
SP18: - - - - - - -
SP19: - - - - - -
SP20: - - - - - - - -
SP21: - - - - - - - - - - -
SP22:
SP23: - - - - - - - - - - - - - - - - - - - -
SP24: - - - - - - - - -
SP25: - -
SP26:
SP27:
SP28:

ExUns: 11c · 11d · 11e · 11f · 11g ^ 12a · 12b · 12c · 12d · 12e · 12f · 12g ^ 13 ^ 14a · 14b ^ 15a · 15b ^ 16 ^ 17a · 17b · 17c ^ 18 ^ 19a · 19b · 19c
SP1: - - - - - - -
SP2: - - -
SP3: - -
SP4: - -
SP5:
SP6: - - - - -
SP7: -
SP8:
SP9: -
SP10: -
SP11: - - - - -
SP12: -
SP13:
SP14:
SP15:
SP16:
SP17:
SP18:
SP19: -
SP20: -
SP21:
SP22:
SP23: - - - - -
SP24:
SP25:
SP26:
SP27:
SP28:

Relevant External Links for CPSF7 Gene

GeneLoc Exon Structure for
CPSF7
ECgene alternative splicing isoforms for
CPSF7

Expression for CPSF7 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CPSF7 Gene

Protein differential expression in normal tissues from HIPED for CPSF7 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (10.0), Nasal epithelium (8.4), and Lymph node (8.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CPSF7 Gene



Protein tissue co-expression partners for CPSF7 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CPSF7 Gene:

CPSF7

SOURCE GeneReport for Unigene cluster for CPSF7 Gene:

Hs.718984

Evidence on tissue expression from TISSUES for CPSF7 Gene

  • Nervous system(4.9)
  • Bone marrow(4.3)
  • Liver(4.3)
  • Lung(2.6)
  • Intestine(2)
genes like me logo Genes that share expression patterns with CPSF7: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CPSF7 Gene

Orthologs for CPSF7 Gene

This gene was present in the common ancestor of animals.

Orthologs for CPSF7 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CPSF7 34 35
  • 99.61 (n)
dog
(Canis familiaris)
Mammalia CPSF7 34 35
  • 95.47 (n)
cow
(Bos Taurus)
Mammalia CPSF7 34 35
  • 95.4 (n)
mouse
(Mus musculus)
Mammalia Cpsf7 34 16 35
  • 93.49 (n)
rat
(Rattus norvegicus)
Mammalia Cpsf7 34
  • 92.47 (n)
oppossum
(Monodelphis domestica)
Mammalia CPSF7 35
  • 90 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CPSF7 35
  • 83 (a)
OneToOne
chicken
(Gallus gallus)
Aves CPSF7 34 35
  • 78.37 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.6759 34
zebrafish
(Danio rerio)
Actinopterygii cpsf6 34
  • 58.5 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG7185 35
  • 30 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea cfim-2 35
  • 27 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 38 (a)
OneToMany
Species where no ortholog for CPSF7 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)
  • 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)
  • 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 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)

Evolution for CPSF7 Gene

ENSEMBL:
Gene Tree for CPSF7 (if available)
TreeFam:
Gene Tree for CPSF7 (if available)

Paralogs for CPSF7 Gene

Paralogs for CPSF7 Gene

genes like me logo Genes that share paralogs with CPSF7: view

Variants for CPSF7 Gene

Sequence variations from dbSNP and Humsavar for CPSF7 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs114207859 Likely benign 61,430,192(+) GGAGA(A/C/G)AGAAC intron-variant, upstream-variant-2KB
rs193920985 Uncertain significance 61,419,947(-) AAACG(-/T)GAGTG reference, frameshift-variant, splice-donor-variant, utr-variant-5-prime
rs201389647 Benign 61,430,199(+) GAACG(C/T)TCTAG intron-variant, upstream-variant-2KB
rs1000016494 -- 61,417,041(+) ATGGC(A/C)CTTCT intron-variant
rs1000033246 -- 61,409,876(+) GCTGA(A/G)GCAGA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CPSF7 Gene

Variant ID Type Subtype PubMed ID
nsv1119883 CNV deletion 24896259
nsv520751 CNV gain 19592680
nsv832178 CNV gain+loss 17160897

Variation tolerance for CPSF7 Gene

Residual Variation Intolerance Score: 13.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.58; 12.47% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CPSF7 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CPSF7

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CPSF7 Gene

Disorders for CPSF7 Gene

Relevant External Links for CPSF7

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CPSF7

No disorders were found for CPSF7 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CPSF7 Gene

Publications for CPSF7 Gene

  1. Evidence that cleavage factor Im is a heterotetrameric protein complex controlling alternative polyadenylation. (PMID: 20695905) Kim S. … Yamaguchi Y. (Genes Cells 2010) 3 4 64
  2. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen J.V. … Mann M. (Cell 2006) 3 4 64
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  4. 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
  5. Robust phosphoproteomic profiling of tyrosine phosphorylation sites from human T cells using immobilized metal affinity chromatography and tandem mass spectrometry. (PMID: 15144186) Brill L.M. … Peters E.C. (Anal. Chem. 2004) 3 4 64

Products for CPSF7 Gene

Sources for CPSF7 Gene

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