Seroatlas · Human Serome Atlas

CPSF3

Cleavage and polyadenylation specificity factor subunit 3

Also known as: CPSF-73, CPSF3_HUMAN, CPSF73, YSH1

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession
Q9UKF6
Gene
CPSF3
Ensembl
ENSG00000119203
Chromosome
2
Canonical length
684 aa
Protein class
Disease related genes, Predicted intracellular proteins

OverviewNCBI Gene

This gene encodes a member of the metallo-beta-lactamase family. The encoded protein is a 73kDa subunit of the cleavage and polyadenylation specificity factor and functions as an endonuclease that recognizes the pre-mRNA 3'-cleavage site AAUAAA prior to polyadenylation. It also cleaves after the pre-mRNA sequence ACCCA during histone 3'-end pre-mRNA processing. [provided by RefSeq, Oct 2012]

Canonical amino-acid sequenceUniProt

684 residues, UniProt reviewed canonical sequence.

>Q9UKF6|CPSF3
     1  MSAIPAEESD QLLIRPLGAG QEVGRSCIIL EFKGRKIMLD CGIHPGLEGM DALPYIDLID
    61  PAEIDLLLIS HFHLDHCGAL PWFLQKTSFK GRTFMTHATK AIYRWLLSDY VKVSNISADD
   121  MLYTETDLEE SMDKIETINF HEVKEVAGIK FWCYHAGHVL GAAMFMIEIA GVKLLYTGDF
   181  SRQEDRHLMA AEIPNIKPDI LIIESTYGTH IHEKREEREA RFCNTVHDIV NRGGRGLIPV
   241  FALGRAQELL LILDEYWQNH PELHDIPIYY ASSLAKKCMA VYQTYVNAMN DKIRKQININ
   301  NPFVFKHISN LKSMDHFDDI GPSVVMASPG MMQSGLSREL FESWCTDKRN GVIIAGYCVE
   361  GTLAKHIMSE PEEITTMSGQ KLPLKMSVDY ISFSAHTDYQ QTSEFIRALK PPHVILVHGE
   421  QNEMARLKAA LIREYEDNDE VHIEVHNPRN TEAVTLNFRG EKLAKVMGFL ADKKPEQGQR
   481  VSGILVKRNF NYHILSPCDL SNYTDLAMST VKQTQAIPYT GPFNLLCYQL QKLTGDVEEL
   541  EIQEKPALKV FKNITVIQEP GMVVLEWLAN PSNDMYADTV TTVILEVQSN PKIRKGAVQK
   601  VSKKLEMHVY SKRLEIMLQD IFGEDCVSVK DDSILSVTVD GKTANLNLET RTVECEEGSE
   661  DDESLREMVE LAAQRLYEAL TPVH

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against CPSF3 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability
Intracellular
Secreted
No
Transmembrane segments
0
Mean surface accessibility (rSASA)
0.26
Highest tissue expression
48 nTPM

Expression across tissuesHPA

Tissue

  • testis: 48 nTPM
  • thymus: 30 nTPM
  • tonsil: 29 nTPM
  • lymph node: 25 nTPM
  • bone marrow: 22 nTPM
  • epididymis: 22 nTPM

Single-cell type

  • late primary spermatocytes: 367 nCPM
  • early spermatids: 157 nCPM
  • early primary spermatocytes: 115 nCPM
  • epicardial cells: 84 nCPM
  • erythrocyte progenitors: 74 nCPM
  • neutrophil progenitors: 74 nCPM

Immune cell

  • myeloid DC: 50 nTPM
  • intermediate monocyte: 40 nTPM
  • non-classical monocyte: 39 nTPM
  • NK-cell: 38 nTPM
  • T-reg: 37 nTPM
  • classical monocyte: 35 nTPM

Brain region

  • white matter: 21 nTPM
  • thalamus: 20 nTPM
  • choroid plexus: 19 nTPM
  • pons: 19 nTPM
  • medulla oblongata: 18 nTPM
  • basal ganglia: 18 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about CPSF3.

Disease | AllUniProt

Conditions CPSF3 is implicated in, by any mechanism.

  • Neurodevelopmental disorder with microcephaly, hypotonia, nystagmus, and seizures (NEDMHS) MIM:619876

Disease | GeneticClinVar

3 pathogenic / likely-pathogenic of 91 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)
0.7
gnomAD pLI
0
gnomAD missense Z
3.61
DepMap mean gene effect
-1.66
DepMap dependency class
pan

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 8% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of CPSF3 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads CPSF3 as an antibody target. Whether an autoantibody or antibody against CPSF3 could matter depends on whether native CPSF3 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

CPSF3 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label CPSF3 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/CPSF3. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

© 2026 · Seroatlas, Discover Oregon LLC · Terms of use

Loading the interactive Seroatlas protein explorer...