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Aliases for CPSF6 Gene

Aliases for CPSF6 Gene

  • Cleavage And Polyadenylation Specific Factor 6 2 3 5
  • Cleavage And Polyadenylation Specificity Factor 68 KDa Subunit 3 4
  • Cleavage And Polyadenylation Specific Factor 6, 68kDa 2 3
  • Pre-MRNA Cleavage Factor Im 68 KDa Subunit 3 4
  • Cleavage Factor Im Complex 68 KDa Subunit 2 3
  • CPSF 68 KDa Subunit 3 4
  • Protein HPBRII-4/7 3 4
  • CFIM68 3 4
  • Cleavage And Polyadenylation Specific Factor 6, 68kD Subunit 2
  • Pre-MRNA Cleavage Factor I, 68kD Subunit 3
  • Pre-MRNA Cleavage Factor Im (68kD) 3
  • HPBRII-4 3
  • HPBRII-7 3
  • CFIM 3

External Ids for CPSF6 Gene

Previous GeneCards Identifiers for CPSF6 Gene

  • GC12M069604
  • GC12P069573
  • GC12P069350
  • GC12P067919
  • GC12P069633

Summaries for CPSF6 Gene

Entrez Gene Summary for CPSF6 Gene

  • The protein encoded by this gene is one subunit of a cleavage factor required for 3' RNA cleavage and polyadenylation processing. The interaction of the protein with the RNA is one of the earliest steps in the assembly of the 3' end processing complex and facilitates the recruitment of other processing factors. The cleavage factor complex is composed of four polypeptides. This gene encodes the 68kD subunit. It has a domain organization reminiscent of spliceosomal proteins. [provided by RefSeq, Jul 2008]

GeneCards Summary for CPSF6 Gene

CPSF6 (Cleavage And Polyadenylation Specific Factor 6) is a Protein Coding gene. Among its related pathways are Infectious disease and mRNA surveillance pathway. GO annotations related to this gene include nucleic acid binding and RNA binding. An important paralog of this gene is CPSF7.

UniProtKB/Swiss-Prot for CPSF6 Gene

  • Component of the cleavage factor Im complex (CFIm) that plays a key role in pre-mRNA 3-processing. Involved in association with NUDT21/CPSF5 in pre-MRNA 3-end poly(A) site cleavage and poly(A) addition. CPSF6 binds to cleavage and polyadenylation RNA substrates and promotes RNA looping.

Gene Wiki entry for CPSF6 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CPSF6 Gene

Genomics for CPSF6 Gene

Regulatory Elements for CPSF6 Gene

Promoters for CPSF6 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around CPSF6 on UCSC Golden Path with GeneCards custom track

Genomic Location for CPSF6 Gene

Chromosome:
12
Start:
69,239,537 bp from pter
End:
69,274,358 bp from pter
Size:
34,822 bases
Orientation:
Plus strand

Genomic View for CPSF6 Gene

Genes around CPSF6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CPSF6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CPSF6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CPSF6 Gene

Proteins for CPSF6 Gene

  • Protein details for CPSF6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q16630-CPSF6_HUMAN
    Recommended name:
    Cleavage and polyadenylation specificity factor subunit 6
    Protein Accession:
    Q16630
    Secondary Accessions:
    • A8K7K9
    • Q53ES1
    • Q9BSJ7
    • Q9BW18

    Protein attributes for CPSF6 Gene

    Size:
    551 amino acids
    Molecular mass:
    59210 Da
    Quaternary structure:
    • Component of the cleavage factor Im (CFIm) complex, composed at least of 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, SFRS3, SFRS7, SNRNP70 and TRA2B/SFRS10.

    Three dimensional structures from OCA and Proteopedia for CPSF6 Gene

    Alternative splice isoforms for CPSF6 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CPSF6 Gene

Proteomics data for CPSF6 Gene at MOPED

Post-translational modifications for CPSF6 Gene

  • Ubiquitination at Lys 79, Lys 161, and Lys 185
  • Modification sites at PhosphoSitePlus

Other Protein References for CPSF6 Gene

Antibody Products

No data available for DME Specific Peptides for CPSF6 Gene

Domains & Families for CPSF6 Gene

Gene Families for CPSF6 Gene

Protein Domains for CPSF6 Gene

Suggested Antigen Peptide Sequences for CPSF6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q16630

UniProtKB/Swiss-Prot:

CPSF6_HUMAN :
  • Contains 1 RRM (RNA recognition motif) domain.
  • Belongs to the RRM CPSF6/7 family.
Domain:
  • Contains 1 RRM (RNA recognition motif) domain.
Family:
  • Belongs to the RRM CPSF6/7 family.
genes like me logo Genes that share domains with CPSF6: view

Function for CPSF6 Gene

Molecular function for CPSF6 Gene

UniProtKB/Swiss-Prot Function:
Component of the cleavage factor Im complex (CFIm) that plays a key role in pre-mRNA 3-processing. Involved in association with NUDT21/CPSF5 in pre-MRNA 3-end poly(A) site cleavage and poly(A) addition. CPSF6 binds to cleavage and polyadenylation RNA substrates and promotes RNA looping.

Gene Ontology (GO) - Molecular Function for CPSF6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with CPSF6: view
genes like me logo Genes that share phenotypes with CPSF6: view

Animal Model Products

  • Taconic Biosciences Mouse Models for CPSF6

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for CPSF6 Gene

Localization for CPSF6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CPSF6 Gene

Nucleus. Note=In punctate subnuclear structures localized adjacent to nuclear speckles, called paraspeckles.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for CPSF6 Gene COMPARTMENTS Subcellular localization image for CPSF6 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for CPSF6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IDA --
GO:0005849 mRNA cleavage factor complex IDA 9659921
GO:0042382 paraspeckles IDA 9659921
genes like me logo Genes that share ontologies with CPSF6: view

Pathways & Interactions for CPSF6 Gene

genes like me logo Genes that share pathways with CPSF6: view

Pathways by source for CPSF6 Gene

Gene Ontology (GO) - Biological Process for CPSF6 Gene

None

No data available for SIGNOR curated interactions for CPSF6 Gene

Drugs & Compounds for CPSF6 Gene

No Compound Related Data Available

Transcripts for CPSF6 Gene

Unigene Clusters for CPSF6 Gene

Cleavage and polyadenylation specific factor 6, 68kDa:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for CPSF6 Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10a · 10b ^ 11a · 11b ^ 12 ^ 13a · 13b ^ 14 ^ 15
SP1: - -
SP2: - - -
SP3: -
SP4:
SP5:
SP6: -
SP7:
SP8:

Relevant External Links for CPSF6 Gene

GeneLoc Exon Structure for
CPSF6
ECgene alternative splicing isoforms for
CPSF6

Expression for CPSF6 Gene

mRNA expression in normal human tissues for CPSF6 Gene

Protein differential expression in normal tissues from HIPED for CPSF6 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (8.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for CPSF6 Gene



SOURCE GeneReport for Unigene cluster for CPSF6 Gene Hs.369606

genes like me logo Genes that share expression patterns with CPSF6: view

Protein tissue co-expression partners for CPSF6 Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for CPSF6 Gene

Orthologs for CPSF6 Gene

This gene was present in the common ancestor of animals.

Orthologs for CPSF6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CPSF6 36
  • 94 (a)
OneToOne
CPSF6 35
  • 99.58 (n)
  • 100 (a)
cow
(Bos Taurus)
Mammalia CPSF6 36
  • 100 (a)
OneToOne
CPSF6 35
  • 96.13 (n)
  • 99.82 (a)
dog
(Canis familiaris)
Mammalia CPSF6 35
  • 92.96 (n)
  • 94.07 (a)
CPSF6 36
  • 93 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Cpsf6 16
Cpsf6 35
  • 92.56 (n)
  • 99.64 (a)
Cpsf6 36
  • 100 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CPSF6 36
  • 99 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CPSF6 36
  • 84 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Cpsf6 35
  • 93.47 (n)
  • 99.82 (a)
chicken
(Gallus gallus)
Aves CPSF6 35
  • 84.74 (n)
  • 94.72 (a)
CPSF6 36
  • 97 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CPSF6 36
  • 95 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.7296 35
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.17115 35
zebrafish
(Danio rerio)
Actinopterygii cpsf6 36
  • 83 (a)
OneToOne
Dr.28441 35
fruit fly
(Drosophila melanogaster)
Insecta CG7185 36
  • 40 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea cfim-2 36
  • 32 (a)
OneToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.3009 35
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 49 (a)
OneToMany
Species with no ortholog for CPSF6:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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 CPSF6 Gene

ENSEMBL:
Gene Tree for CPSF6 (if available)
TreeFam:
Gene Tree for CPSF6 (if available)

Paralogs for CPSF6 Gene

Paralogs for CPSF6 Gene

(1) SIMAP similar genes for CPSF6 Gene using alignment to 5 proteins:

Pseudogenes.org Pseudogenes for CPSF6 Gene

genes like me logo Genes that share paralogs with CPSF6: view

Variants for CPSF6 Gene

Sequence variations from dbSNP and Humsavar for CPSF6 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs478863 -- 69,245,427(-) accta(C/T)gataa intron-variant
rs317630 -- 69,244,067(-) aagca(A/G)gaaga intron-variant
rs570256 -- 69,269,149(-) ATTTT(A/T)ATGTA intron-variant
rs1083263 -- 69,244,361(-) ctgta(A/G)tccca intron-variant
rs1020630 -- 69,246,543(-) CTGTA(A/T)AAATC intron-variant

Variation tolerance for CPSF6 Gene

Residual Variation Intolerance Score: 21.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.29; 6.36% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CPSF6 Gene

HapMap Linkage Disequilibrium report
CPSF6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for CPSF6 Gene

Disorders for CPSF6 Gene

Relevant External Links for CPSF6

Genetic Association Database (GAD)
CPSF6
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CPSF6

No disorders were found for CPSF6 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CPSF6 Gene

Publications for CPSF6 Gene

  1. Human pre-mRNA cleavage factor Im is related to spliceosomal SR proteins and can be reconstituted in vitro from recombinant subunits. (PMID: 9659921) Rueegsegger U. … Keller W. (Mol. Cell 1998) 2 3 4 67
  2. Subnuclear localization and dynamics of the Pre-mRNA 3' end processing factor mammalian cleavage factor I 68-kDa subunit. (PMID: 17267687) Cardinale S. … Barabino S.M. (Mol. Biol. Cell 2007) 2 3
  3. Analysis of a noncanonical poly(A) site reveals a tripartite mechanism for vertebrate poly(A) site recognition. (PMID: 15937220) Venkataraman K. … Gilmartin G.M. (Genes Dev. 2005) 3 23
  4. Interaction of amyotrophic lateral sclerosis/frontotemporal lobar degeneration-associated fused-in-sarcoma with proteins involved in metabolic and protein degradation pathways. (PMID: 25192599) Wang T. … Xu J. (Neurobiol. Aging 2015) 3
  5. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal K.B. … Olsen J.V. (Sci Signal 2015) 3

Products for CPSF6 Gene

Sources for CPSF6 Gene

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